genomics

package
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Published: Jun 7, 2021 License: Apache-2.0 Imports: 19 Imported by: 0

Documentation

Index

Constants

This section is empty.

Variables

View Source
var (
	AnnotationType_name = map[int32]string{
		0: "ANNOTATION_TYPE_UNSPECIFIED",
		1: "GENERIC",
		2: "VARIANT",
		3: "GENE",
		4: "TRANSCRIPT",
	}
	AnnotationType_value = map[string]int32{
		"ANNOTATION_TYPE_UNSPECIFIED": 0,
		"GENERIC":                     1,
		"VARIANT":                     2,
		"GENE":                        3,
		"TRANSCRIPT":                  4,
	}
)

Enum value maps for AnnotationType.

View Source
var (
	VariantAnnotation_Type_name = map[int32]string{
		0: "TYPE_UNSPECIFIED",
		1: "TYPE_OTHER",
		2: "INSERTION",
		3: "DELETION",
		4: "SUBSTITUTION",
		5: "SNP",
		6: "STRUCTURAL",
		7: "CNV",
	}
	VariantAnnotation_Type_value = map[string]int32{
		"TYPE_UNSPECIFIED": 0,
		"TYPE_OTHER":       1,
		"INSERTION":        2,
		"DELETION":         3,
		"SUBSTITUTION":     4,
		"SNP":              5,
		"STRUCTURAL":       6,
		"CNV":              7,
	}
)

Enum value maps for VariantAnnotation_Type.

View Source
var (
	VariantAnnotation_Effect_name = map[int32]string{
		0: "EFFECT_UNSPECIFIED",
		1: "EFFECT_OTHER",
		2: "FRAMESHIFT",
		3: "FRAME_PRESERVING_INDEL",
		4: "SYNONYMOUS_SNP",
		5: "NONSYNONYMOUS_SNP",
		6: "STOP_GAIN",
		7: "STOP_LOSS",
		8: "SPLICE_SITE_DISRUPTION",
	}
	VariantAnnotation_Effect_value = map[string]int32{
		"EFFECT_UNSPECIFIED":     0,
		"EFFECT_OTHER":           1,
		"FRAMESHIFT":             2,
		"FRAME_PRESERVING_INDEL": 3,
		"SYNONYMOUS_SNP":         4,
		"NONSYNONYMOUS_SNP":      5,
		"STOP_GAIN":              6,
		"STOP_LOSS":              7,
		"SPLICE_SITE_DISRUPTION": 8,
	}
)

Enum value maps for VariantAnnotation_Effect.

View Source
var (
	VariantAnnotation_ClinicalSignificance_name = map[int32]string{
		0:  "CLINICAL_SIGNIFICANCE_UNSPECIFIED",
		1:  "CLINICAL_SIGNIFICANCE_OTHER",
		2:  "UNCERTAIN",
		3:  "BENIGN",
		4:  "LIKELY_BENIGN",
		5:  "LIKELY_PATHOGENIC",
		6:  "PATHOGENIC",
		7:  "DRUG_RESPONSE",
		8:  "HISTOCOMPATIBILITY",
		9:  "CONFERS_SENSITIVITY",
		10: "RISK_FACTOR",
		11: "ASSOCIATION",
		12: "PROTECTIVE",
		13: "MULTIPLE_REPORTED",
	}
	VariantAnnotation_ClinicalSignificance_value = map[string]int32{
		"CLINICAL_SIGNIFICANCE_UNSPECIFIED": 0,
		"CLINICAL_SIGNIFICANCE_OTHER":       1,
		"UNCERTAIN":                         2,
		"BENIGN":                            3,
		"LIKELY_BENIGN":                     4,
		"LIKELY_PATHOGENIC":                 5,
		"PATHOGENIC":                        6,
		"DRUG_RESPONSE":                     7,
		"HISTOCOMPATIBILITY":                8,
		"CONFERS_SENSITIVITY":               9,
		"RISK_FACTOR":                       10,
		"ASSOCIATION":                       11,
		"PROTECTIVE":                        12,
		"MULTIPLE_REPORTED":                 13,
	}
)

Enum value maps for VariantAnnotation_ClinicalSignificance.

View Source
var (
	CigarUnit_Operation_name = map[int32]string{
		0: "OPERATION_UNSPECIFIED",
		1: "ALIGNMENT_MATCH",
		2: "INSERT",
		3: "DELETE",
		4: "SKIP",
		5: "CLIP_SOFT",
		6: "CLIP_HARD",
		7: "PAD",
		8: "SEQUENCE_MATCH",
		9: "SEQUENCE_MISMATCH",
	}
	CigarUnit_Operation_value = map[string]int32{
		"OPERATION_UNSPECIFIED": 0,
		"ALIGNMENT_MATCH":       1,
		"INSERT":                2,
		"DELETE":                3,
		"SKIP":                  4,
		"CLIP_SOFT":             5,
		"CLIP_HARD":             6,
		"PAD":                   7,
		"SEQUENCE_MATCH":        8,
		"SEQUENCE_MISMATCH":     9,
	}
)

Enum value maps for CigarUnit_Operation.

View Source
var (
	ImportReadGroupSetsRequest_PartitionStrategy_name = map[int32]string{
		0: "PARTITION_STRATEGY_UNSPECIFIED",
		1: "PER_FILE_PER_SAMPLE",
		2: "MERGE_ALL",
	}
	ImportReadGroupSetsRequest_PartitionStrategy_value = map[string]int32{
		"PARTITION_STRATEGY_UNSPECIFIED": 0,
		"PER_FILE_PER_SAMPLE":            1,
		"MERGE_ALL":                      2,
	}
)

Enum value maps for ImportReadGroupSetsRequest_PartitionStrategy.

View Source
var (
	InfoMergeOperation_name = map[int32]string{
		0: "INFO_MERGE_OPERATION_UNSPECIFIED",
		1: "IGNORE_NEW",
		2: "MOVE_TO_CALLS",
	}
	InfoMergeOperation_value = map[string]int32{
		"INFO_MERGE_OPERATION_UNSPECIFIED": 0,
		"IGNORE_NEW":                       1,
		"MOVE_TO_CALLS":                    2,
	}
)

Enum value maps for InfoMergeOperation.

View Source
var (
	VariantSetMetadata_Type_name = map[int32]string{
		0: "TYPE_UNSPECIFIED",
		1: "INTEGER",
		2: "FLOAT",
		3: "FLAG",
		4: "CHARACTER",
		5: "STRING",
	}
	VariantSetMetadata_Type_value = map[string]int32{
		"TYPE_UNSPECIFIED": 0,
		"INTEGER":          1,
		"FLOAT":            2,
		"FLAG":             3,
		"CHARACTER":        4,
		"STRING":           5,
	}
)

Enum value maps for VariantSetMetadata_Type.

View Source
var (
	ImportVariantsRequest_Format_name = map[int32]string{
		0: "FORMAT_UNSPECIFIED",
		1: "FORMAT_VCF",
		2: "FORMAT_COMPLETE_GENOMICS",
	}
	ImportVariantsRequest_Format_value = map[string]int32{
		"FORMAT_UNSPECIFIED":       0,
		"FORMAT_VCF":               1,
		"FORMAT_COMPLETE_GENOMICS": 2,
	}
)

Enum value maps for ImportVariantsRequest_Format.

View Source
var (
	ExportVariantSetRequest_Format_name = map[int32]string{
		0: "FORMAT_UNSPECIFIED",
		1: "FORMAT_BIGQUERY",
	}
	ExportVariantSetRequest_Format_value = map[string]int32{
		"FORMAT_UNSPECIFIED": 0,
		"FORMAT_BIGQUERY":    1,
	}
)

Enum value maps for ExportVariantSetRequest_Format.

View Source
var File_google_genomics_v1_annotations_proto protoreflect.FileDescriptor
View Source
var File_google_genomics_v1_cigar_proto protoreflect.FileDescriptor
View Source
var File_google_genomics_v1_datasets_proto protoreflect.FileDescriptor
View Source
var File_google_genomics_v1_operations_proto protoreflect.FileDescriptor
View Source
var File_google_genomics_v1_position_proto protoreflect.FileDescriptor
View Source
var File_google_genomics_v1_range_proto protoreflect.FileDescriptor
View Source
var File_google_genomics_v1_readalignment_proto protoreflect.FileDescriptor
View Source
var File_google_genomics_v1_readgroup_proto protoreflect.FileDescriptor
View Source
var File_google_genomics_v1_readgroupset_proto protoreflect.FileDescriptor
View Source
var File_google_genomics_v1_reads_proto protoreflect.FileDescriptor
View Source
var File_google_genomics_v1_references_proto protoreflect.FileDescriptor
View Source
var File_google_genomics_v1_variants_proto protoreflect.FileDescriptor

Functions

func RegisterAnnotationServiceV1Server

func RegisterAnnotationServiceV1Server(s *grpc.Server, srv AnnotationServiceV1Server)

func RegisterDatasetServiceV1Server

func RegisterDatasetServiceV1Server(s *grpc.Server, srv DatasetServiceV1Server)

func RegisterReadServiceV1Server

func RegisterReadServiceV1Server(s *grpc.Server, srv ReadServiceV1Server)

func RegisterReferenceServiceV1Server

func RegisterReferenceServiceV1Server(s *grpc.Server, srv ReferenceServiceV1Server)

func RegisterStreamingReadServiceServer

func RegisterStreamingReadServiceServer(s *grpc.Server, srv StreamingReadServiceServer)

func RegisterStreamingVariantServiceServer

func RegisterStreamingVariantServiceServer(s *grpc.Server, srv StreamingVariantServiceServer)

func RegisterVariantServiceV1Server

func RegisterVariantServiceV1Server(s *grpc.Server, srv VariantServiceV1Server)

Types

type Annotation

type Annotation struct {

	// The server-generated annotation ID, unique across all annotations.
	Id string `protobuf:"bytes,1,opt,name=id,proto3" json:"id,omitempty"`
	// The annotation set to which this annotation belongs.
	AnnotationSetId string `protobuf:"bytes,2,opt,name=annotation_set_id,json=annotationSetId,proto3" json:"annotation_set_id,omitempty"`
	// The display name of this annotation.
	Name string `protobuf:"bytes,3,opt,name=name,proto3" json:"name,omitempty"`
	// The ID of the Google Genomics reference associated with this range.
	ReferenceId string `protobuf:"bytes,4,opt,name=reference_id,json=referenceId,proto3" json:"reference_id,omitempty"`
	// The display name corresponding to the reference specified by
	// `referenceId`, for example `chr1`, `1`, or `chrX`.
	ReferenceName string `protobuf:"bytes,5,opt,name=reference_name,json=referenceName,proto3" json:"reference_name,omitempty"`
	// The start position of the range on the reference, 0-based inclusive.
	Start int64 `protobuf:"varint,6,opt,name=start,proto3" json:"start,omitempty"`
	// The end position of the range on the reference, 0-based exclusive.
	End int64 `protobuf:"varint,7,opt,name=end,proto3" json:"end,omitempty"`
	// Whether this range refers to the reverse strand, as opposed to the forward
	// strand. Note that regardless of this field, the start/end position of the
	// range always refer to the forward strand.
	ReverseStrand bool `protobuf:"varint,8,opt,name=reverse_strand,json=reverseStrand,proto3" json:"reverse_strand,omitempty"`
	// The data type for this annotation. Must match the containing annotation
	// set's type.
	Type AnnotationType `protobuf:"varint,9,opt,name=type,proto3,enum=google.genomics.v1.AnnotationType" json:"type,omitempty"`
	// Types that are assignable to Value:
	//	*Annotation_Variant
	//	*Annotation_Transcript
	Value isAnnotation_Value `protobuf_oneof:"value"`
	// A map of additional read alignment information. This must be of the form
	// map<string, string[]> (string key mapping to a list of string values).
	Info map[string]*structpb.ListValue `` /* 150-byte string literal not displayed */
	// contains filtered or unexported fields
}

An annotation describes a region of reference genome. The value of an annotation may be one of several canonical types, supplemented by arbitrary info tags. An annotation is not inherently associated with a specific sample or individual (though a client could choose to use annotations in this way). Example canonical annotation types are `GENE` and `VARIANT`.

func (*Annotation) Descriptor deprecated

func (*Annotation) Descriptor() ([]byte, []int)

Deprecated: Use Annotation.ProtoReflect.Descriptor instead.

func (*Annotation) GetAnnotationSetId

func (x *Annotation) GetAnnotationSetId() string

func (*Annotation) GetEnd

func (x *Annotation) GetEnd() int64

func (*Annotation) GetId

func (x *Annotation) GetId() string

func (*Annotation) GetInfo

func (x *Annotation) GetInfo() map[string]*structpb.ListValue

func (*Annotation) GetName

func (x *Annotation) GetName() string

func (*Annotation) GetReferenceId

func (x *Annotation) GetReferenceId() string

func (*Annotation) GetReferenceName

func (x *Annotation) GetReferenceName() string

func (*Annotation) GetReverseStrand

func (x *Annotation) GetReverseStrand() bool

func (*Annotation) GetStart

func (x *Annotation) GetStart() int64

func (*Annotation) GetTranscript

func (x *Annotation) GetTranscript() *Transcript

func (*Annotation) GetType

func (x *Annotation) GetType() AnnotationType

func (*Annotation) GetValue

func (m *Annotation) GetValue() isAnnotation_Value

func (*Annotation) GetVariant

func (x *Annotation) GetVariant() *VariantAnnotation

func (*Annotation) ProtoMessage

func (*Annotation) ProtoMessage()

func (*Annotation) ProtoReflect

func (x *Annotation) ProtoReflect() protoreflect.Message

func (*Annotation) Reset

func (x *Annotation) Reset()

func (*Annotation) String

func (x *Annotation) String() string

type AnnotationServiceV1Client

type AnnotationServiceV1Client interface {
	// Creates a new annotation set. Caller must have WRITE permission for the
	// associated dataset.
	//
	// The following fields are required:
	//
	//   * [datasetId][google.genomics.v1.AnnotationSet.dataset_id]
	//   * [referenceSetId][google.genomics.v1.AnnotationSet.reference_set_id]
	//
	// All other fields may be optionally specified, unless documented as being
	// server-generated (for example, the `id` field).
	CreateAnnotationSet(ctx context.Context, in *CreateAnnotationSetRequest, opts ...grpc.CallOption) (*AnnotationSet, error)
	// Gets an annotation set. Caller must have READ permission for
	// the associated dataset.
	GetAnnotationSet(ctx context.Context, in *GetAnnotationSetRequest, opts ...grpc.CallOption) (*AnnotationSet, error)
	// Updates an annotation set. The update must respect all mutability
	// restrictions and other invariants described on the annotation set resource.
	// Caller must have WRITE permission for the associated dataset.
	UpdateAnnotationSet(ctx context.Context, in *UpdateAnnotationSetRequest, opts ...grpc.CallOption) (*AnnotationSet, error)
	// Deletes an annotation set. Caller must have WRITE permission
	// for the associated annotation set.
	DeleteAnnotationSet(ctx context.Context, in *DeleteAnnotationSetRequest, opts ...grpc.CallOption) (*emptypb.Empty, error)
	// Searches for annotation sets that match the given criteria. Annotation sets
	// are returned in an unspecified order. This order is consistent, such that
	// two queries for the same content (regardless of page size) yield annotation
	// sets in the same order across their respective streams of paginated
	// responses. Caller must have READ permission for the queried datasets.
	SearchAnnotationSets(ctx context.Context, in *SearchAnnotationSetsRequest, opts ...grpc.CallOption) (*SearchAnnotationSetsResponse, error)
	// Creates a new annotation. Caller must have WRITE permission
	// for the associated annotation set.
	//
	// The following fields are required:
	//
	// * [annotationSetId][google.genomics.v1.Annotation.annotation_set_id]
	// * [referenceName][google.genomics.v1.Annotation.reference_name] or
	//   [referenceId][google.genomics.v1.Annotation.reference_id]
	//
	// ### Transcripts
	//
	// For annotations of type TRANSCRIPT, the following fields of
	// [transcript][google.genomics.v1.Annotation.transcript] must be provided:
	//
	// * [exons.start][google.genomics.v1.Transcript.Exon.start]
	// * [exons.end][google.genomics.v1.Transcript.Exon.end]
	//
	// All other fields may be optionally specified, unless documented as being
	// server-generated (for example, the `id` field). The annotated
	// range must be no longer than 100Mbp (mega base pairs). See the
	// [Annotation resource][google.genomics.v1.Annotation]
	// for additional restrictions on each field.
	CreateAnnotation(ctx context.Context, in *CreateAnnotationRequest, opts ...grpc.CallOption) (*Annotation, error)
	// Creates one or more new annotations atomically. All annotations must
	// belong to the same annotation set. Caller must have WRITE
	// permission for this annotation set. For optimal performance, batch
	// positionally adjacent annotations together.
	//
	// If the request has a systemic issue, such as an attempt to write to
	// an inaccessible annotation set, the entire RPC will fail accordingly. For
	// lesser data issues, when possible an error will be isolated to the
	// corresponding batch entry in the response; the remaining well formed
	// annotations will be created normally.
	//
	// For details on the requirements for each individual annotation resource,
	// see
	// [CreateAnnotation][google.genomics.v1.AnnotationServiceV1.CreateAnnotation].
	BatchCreateAnnotations(ctx context.Context, in *BatchCreateAnnotationsRequest, opts ...grpc.CallOption) (*BatchCreateAnnotationsResponse, error)
	// Gets an annotation. Caller must have READ permission
	// for the associated annotation set.
	GetAnnotation(ctx context.Context, in *GetAnnotationRequest, opts ...grpc.CallOption) (*Annotation, error)
	// Updates an annotation. Caller must have
	// WRITE permission for the associated dataset.
	UpdateAnnotation(ctx context.Context, in *UpdateAnnotationRequest, opts ...grpc.CallOption) (*Annotation, error)
	// Deletes an annotation. Caller must have WRITE permission for
	// the associated annotation set.
	DeleteAnnotation(ctx context.Context, in *DeleteAnnotationRequest, opts ...grpc.CallOption) (*emptypb.Empty, error)
	// Searches for annotations that match the given criteria. Results are
	// ordered by genomic coordinate (by reference sequence, then position).
	// Annotations with equivalent genomic coordinates are returned in an
	// unspecified order. This order is consistent, such that two queries for the
	// same content (regardless of page size) yield annotations in the same order
	// across their respective streams of paginated responses. Caller must have
	// READ permission for the queried annotation sets.
	SearchAnnotations(ctx context.Context, in *SearchAnnotationsRequest, opts ...grpc.CallOption) (*SearchAnnotationsResponse, error)
}

AnnotationServiceV1Client is the client API for AnnotationServiceV1 service.

For semantics around ctx use and closing/ending streaming RPCs, please refer to https://godoc.org/google.golang.org/grpc#ClientConn.NewStream.

type AnnotationServiceV1Server

type AnnotationServiceV1Server interface {
	// Creates a new annotation set. Caller must have WRITE permission for the
	// associated dataset.
	//
	// The following fields are required:
	//
	//   * [datasetId][google.genomics.v1.AnnotationSet.dataset_id]
	//   * [referenceSetId][google.genomics.v1.AnnotationSet.reference_set_id]
	//
	// All other fields may be optionally specified, unless documented as being
	// server-generated (for example, the `id` field).
	CreateAnnotationSet(context.Context, *CreateAnnotationSetRequest) (*AnnotationSet, error)
	// Gets an annotation set. Caller must have READ permission for
	// the associated dataset.
	GetAnnotationSet(context.Context, *GetAnnotationSetRequest) (*AnnotationSet, error)
	// Updates an annotation set. The update must respect all mutability
	// restrictions and other invariants described on the annotation set resource.
	// Caller must have WRITE permission for the associated dataset.
	UpdateAnnotationSet(context.Context, *UpdateAnnotationSetRequest) (*AnnotationSet, error)
	// Deletes an annotation set. Caller must have WRITE permission
	// for the associated annotation set.
	DeleteAnnotationSet(context.Context, *DeleteAnnotationSetRequest) (*emptypb.Empty, error)
	// Searches for annotation sets that match the given criteria. Annotation sets
	// are returned in an unspecified order. This order is consistent, such that
	// two queries for the same content (regardless of page size) yield annotation
	// sets in the same order across their respective streams of paginated
	// responses. Caller must have READ permission for the queried datasets.
	SearchAnnotationSets(context.Context, *SearchAnnotationSetsRequest) (*SearchAnnotationSetsResponse, error)
	// Creates a new annotation. Caller must have WRITE permission
	// for the associated annotation set.
	//
	// The following fields are required:
	//
	// * [annotationSetId][google.genomics.v1.Annotation.annotation_set_id]
	// * [referenceName][google.genomics.v1.Annotation.reference_name] or
	//   [referenceId][google.genomics.v1.Annotation.reference_id]
	//
	// ### Transcripts
	//
	// For annotations of type TRANSCRIPT, the following fields of
	// [transcript][google.genomics.v1.Annotation.transcript] must be provided:
	//
	// * [exons.start][google.genomics.v1.Transcript.Exon.start]
	// * [exons.end][google.genomics.v1.Transcript.Exon.end]
	//
	// All other fields may be optionally specified, unless documented as being
	// server-generated (for example, the `id` field). The annotated
	// range must be no longer than 100Mbp (mega base pairs). See the
	// [Annotation resource][google.genomics.v1.Annotation]
	// for additional restrictions on each field.
	CreateAnnotation(context.Context, *CreateAnnotationRequest) (*Annotation, error)
	// Creates one or more new annotations atomically. All annotations must
	// belong to the same annotation set. Caller must have WRITE
	// permission for this annotation set. For optimal performance, batch
	// positionally adjacent annotations together.
	//
	// If the request has a systemic issue, such as an attempt to write to
	// an inaccessible annotation set, the entire RPC will fail accordingly. For
	// lesser data issues, when possible an error will be isolated to the
	// corresponding batch entry in the response; the remaining well formed
	// annotations will be created normally.
	//
	// For details on the requirements for each individual annotation resource,
	// see
	// [CreateAnnotation][google.genomics.v1.AnnotationServiceV1.CreateAnnotation].
	BatchCreateAnnotations(context.Context, *BatchCreateAnnotationsRequest) (*BatchCreateAnnotationsResponse, error)
	// Gets an annotation. Caller must have READ permission
	// for the associated annotation set.
	GetAnnotation(context.Context, *GetAnnotationRequest) (*Annotation, error)
	// Updates an annotation. Caller must have
	// WRITE permission for the associated dataset.
	UpdateAnnotation(context.Context, *UpdateAnnotationRequest) (*Annotation, error)
	// Deletes an annotation. Caller must have WRITE permission for
	// the associated annotation set.
	DeleteAnnotation(context.Context, *DeleteAnnotationRequest) (*emptypb.Empty, error)
	// Searches for annotations that match the given criteria. Results are
	// ordered by genomic coordinate (by reference sequence, then position).
	// Annotations with equivalent genomic coordinates are returned in an
	// unspecified order. This order is consistent, such that two queries for the
	// same content (regardless of page size) yield annotations in the same order
	// across their respective streams of paginated responses. Caller must have
	// READ permission for the queried annotation sets.
	SearchAnnotations(context.Context, *SearchAnnotationsRequest) (*SearchAnnotationsResponse, error)
}

AnnotationServiceV1Server is the server API for AnnotationServiceV1 service.

type AnnotationSet

type AnnotationSet struct {

	// The server-generated annotation set ID, unique across all annotation sets.
	Id string `protobuf:"bytes,1,opt,name=id,proto3" json:"id,omitempty"`
	// The dataset to which this annotation set belongs.
	DatasetId string `protobuf:"bytes,2,opt,name=dataset_id,json=datasetId,proto3" json:"dataset_id,omitempty"`
	// The ID of the reference set that defines the coordinate space for this
	// set's annotations.
	ReferenceSetId string `protobuf:"bytes,3,opt,name=reference_set_id,json=referenceSetId,proto3" json:"reference_set_id,omitempty"`
	// The display name for this annotation set.
	Name string `protobuf:"bytes,4,opt,name=name,proto3" json:"name,omitempty"`
	// The source URI describing the file from which this annotation set was
	// generated, if any.
	SourceUri string `protobuf:"bytes,5,opt,name=source_uri,json=sourceUri,proto3" json:"source_uri,omitempty"`
	// The type of annotations contained within this set.
	Type AnnotationType `protobuf:"varint,6,opt,name=type,proto3,enum=google.genomics.v1.AnnotationType" json:"type,omitempty"`
	// A map of additional read alignment information. This must be of the form
	// map<string, string[]> (string key mapping to a list of string values).
	Info map[string]*structpb.ListValue `` /* 150-byte string literal not displayed */
	// contains filtered or unexported fields
}

An annotation set is a logical grouping of annotations that share consistent type information and provenance. Examples of annotation sets include 'all genes from refseq', and 'all variant annotations from ClinVar'.

func (*AnnotationSet) Descriptor deprecated

func (*AnnotationSet) Descriptor() ([]byte, []int)

Deprecated: Use AnnotationSet.ProtoReflect.Descriptor instead.

func (*AnnotationSet) GetDatasetId

func (x *AnnotationSet) GetDatasetId() string

func (*AnnotationSet) GetId

func (x *AnnotationSet) GetId() string

func (*AnnotationSet) GetInfo

func (x *AnnotationSet) GetInfo() map[string]*structpb.ListValue

func (*AnnotationSet) GetName

func (x *AnnotationSet) GetName() string

func (*AnnotationSet) GetReferenceSetId

func (x *AnnotationSet) GetReferenceSetId() string

func (*AnnotationSet) GetSourceUri

func (x *AnnotationSet) GetSourceUri() string

func (*AnnotationSet) GetType

func (x *AnnotationSet) GetType() AnnotationType

func (*AnnotationSet) ProtoMessage

func (*AnnotationSet) ProtoMessage()

func (*AnnotationSet) ProtoReflect

func (x *AnnotationSet) ProtoReflect() protoreflect.Message

func (*AnnotationSet) Reset

func (x *AnnotationSet) Reset()

func (*AnnotationSet) String

func (x *AnnotationSet) String() string

type AnnotationType

type AnnotationType int32

When an Annotation[google.genomics.v1.Annotation] or AnnotationSet[google.genomics.v1.AnnotationSet] is created, if `type` is not specified it will be set to `GENERIC`.

const (
	AnnotationType_ANNOTATION_TYPE_UNSPECIFIED AnnotationType = 0
	// A `GENERIC` annotation type should be used when no other annotation
	// type will suffice. This represents an untyped annotation of the reference
	// genome.
	AnnotationType_GENERIC AnnotationType = 1
	// A `VARIANT` annotation type.
	AnnotationType_VARIANT AnnotationType = 2
	// A `GENE` annotation type represents the existence of a gene at the
	// associated reference coordinates. The start coordinate is typically the
	// gene's transcription start site and the end is typically the end of the
	// gene's last exon.
	AnnotationType_GENE AnnotationType = 3
	// A `TRANSCRIPT` annotation type represents the assertion that a
	// particular region of the reference genome may be transcribed as RNA.
	AnnotationType_TRANSCRIPT AnnotationType = 4
)

func (AnnotationType) Descriptor

func (AnnotationType) Enum

func (x AnnotationType) Enum() *AnnotationType

func (AnnotationType) EnumDescriptor deprecated

func (AnnotationType) EnumDescriptor() ([]byte, []int)

Deprecated: Use AnnotationType.Descriptor instead.

func (AnnotationType) Number

func (AnnotationType) String

func (x AnnotationType) String() string

func (AnnotationType) Type

type Annotation_Transcript

type Annotation_Transcript struct {
	// A transcript value represents the assertion that a particular region of
	// the reference genome may be transcribed as RNA. An alternative splicing
	// pattern would be represented as a separate transcript object. This field
	// is only set for annotations of type `TRANSCRIPT`.
	Transcript *Transcript `protobuf:"bytes,11,opt,name=transcript,proto3,oneof"`
}

type Annotation_Variant

type Annotation_Variant struct {
	// A variant annotation, which describes the effect of a variant on the
	// genome, the coding sequence, and/or higher level consequences at the
	// organism level e.g. pathogenicity. This field is only set for annotations
	// of type `VARIANT`.
	Variant *VariantAnnotation `protobuf:"bytes,10,opt,name=variant,proto3,oneof"`
}

type BatchCreateAnnotationsRequest

type BatchCreateAnnotationsRequest struct {

	// The annotations to be created. At most 4096 can be specified in a single
	// request.
	Annotations []*Annotation `protobuf:"bytes,1,rep,name=annotations,proto3" json:"annotations,omitempty"`
	// A unique request ID which enables the server to detect duplicated requests.
	// If provided, duplicated requests will result in the same response; if not
	// provided, duplicated requests may result in duplicated data. For a given
	// annotation set, callers should not reuse `request_id`s when writing
	// different batches of annotations - behavior in this case is undefined.
	// A common approach is to use a UUID. For batch jobs where worker crashes are
	// a possibility, consider using some unique variant of a worker or run ID.
	RequestId string `protobuf:"bytes,2,opt,name=request_id,json=requestId,proto3" json:"request_id,omitempty"`
	// contains filtered or unexported fields
}

func (*BatchCreateAnnotationsRequest) Descriptor deprecated

func (*BatchCreateAnnotationsRequest) Descriptor() ([]byte, []int)

Deprecated: Use BatchCreateAnnotationsRequest.ProtoReflect.Descriptor instead.

func (*BatchCreateAnnotationsRequest) GetAnnotations

func (x *BatchCreateAnnotationsRequest) GetAnnotations() []*Annotation

func (*BatchCreateAnnotationsRequest) GetRequestId

func (x *BatchCreateAnnotationsRequest) GetRequestId() string

func (*BatchCreateAnnotationsRequest) ProtoMessage

func (*BatchCreateAnnotationsRequest) ProtoMessage()

func (*BatchCreateAnnotationsRequest) ProtoReflect

func (*BatchCreateAnnotationsRequest) Reset

func (x *BatchCreateAnnotationsRequest) Reset()

func (*BatchCreateAnnotationsRequest) String

type BatchCreateAnnotationsResponse

type BatchCreateAnnotationsResponse struct {

	// The resulting per-annotation entries, ordered consistently with the
	// original request.
	Entries []*BatchCreateAnnotationsResponse_Entry `protobuf:"bytes,1,rep,name=entries,proto3" json:"entries,omitempty"`
	// contains filtered or unexported fields
}

func (*BatchCreateAnnotationsResponse) Descriptor deprecated

func (*BatchCreateAnnotationsResponse) Descriptor() ([]byte, []int)

Deprecated: Use BatchCreateAnnotationsResponse.ProtoReflect.Descriptor instead.

func (*BatchCreateAnnotationsResponse) GetEntries

func (*BatchCreateAnnotationsResponse) ProtoMessage

func (*BatchCreateAnnotationsResponse) ProtoMessage()

func (*BatchCreateAnnotationsResponse) ProtoReflect

func (*BatchCreateAnnotationsResponse) Reset

func (x *BatchCreateAnnotationsResponse) Reset()

func (*BatchCreateAnnotationsResponse) String

type BatchCreateAnnotationsResponse_Entry

type BatchCreateAnnotationsResponse_Entry struct {

	// The creation status.
	Status *status.Status `protobuf:"bytes,1,opt,name=status,proto3" json:"status,omitempty"`
	// The created annotation, if creation was successful.
	Annotation *Annotation `protobuf:"bytes,2,opt,name=annotation,proto3" json:"annotation,omitempty"`
	// contains filtered or unexported fields
}

func (*BatchCreateAnnotationsResponse_Entry) Descriptor deprecated

func (*BatchCreateAnnotationsResponse_Entry) Descriptor() ([]byte, []int)

Deprecated: Use BatchCreateAnnotationsResponse_Entry.ProtoReflect.Descriptor instead.

func (*BatchCreateAnnotationsResponse_Entry) GetAnnotation

func (*BatchCreateAnnotationsResponse_Entry) GetStatus

func (*BatchCreateAnnotationsResponse_Entry) ProtoMessage

func (*BatchCreateAnnotationsResponse_Entry) ProtoMessage()

func (*BatchCreateAnnotationsResponse_Entry) ProtoReflect

func (*BatchCreateAnnotationsResponse_Entry) Reset

func (*BatchCreateAnnotationsResponse_Entry) String

type CallSet

type CallSet struct {

	// The server-generated call set ID, unique across all call sets.
	Id string `protobuf:"bytes,1,opt,name=id,proto3" json:"id,omitempty"`
	// The call set name.
	Name string `protobuf:"bytes,2,opt,name=name,proto3" json:"name,omitempty"`
	// The sample ID this call set corresponds to.
	SampleId string `protobuf:"bytes,7,opt,name=sample_id,json=sampleId,proto3" json:"sample_id,omitempty"`
	// The IDs of the variant sets this call set belongs to. This field must
	// have exactly length one, as a call set belongs to a single variant set.
	// This field is repeated for compatibility with the
	// [GA4GH 0.5.1
	// API](https://github.com/ga4gh/schemas/blob/v0.5.1/src/main/resources/avro/variants.avdl#L76).
	VariantSetIds []string `protobuf:"bytes,6,rep,name=variant_set_ids,json=variantSetIds,proto3" json:"variant_set_ids,omitempty"`
	// The date this call set was created in milliseconds from the epoch.
	Created int64 `protobuf:"varint,5,opt,name=created,proto3" json:"created,omitempty"`
	// A map of additional call set information. This must be of the form
	// map<string, string[]> (string key mapping to a list of string values).
	Info map[string]*structpb.ListValue `` /* 149-byte string literal not displayed */
	// contains filtered or unexported fields
}

A call set is a collection of variant calls, typically for one sample. It belongs to a variant set.

For more genomics resource definitions, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)

func (*CallSet) Descriptor deprecated

func (*CallSet) Descriptor() ([]byte, []int)

Deprecated: Use CallSet.ProtoReflect.Descriptor instead.

func (*CallSet) GetCreated

func (x *CallSet) GetCreated() int64

func (*CallSet) GetId

func (x *CallSet) GetId() string

func (*CallSet) GetInfo

func (x *CallSet) GetInfo() map[string]*structpb.ListValue

func (*CallSet) GetName

func (x *CallSet) GetName() string

func (*CallSet) GetSampleId

func (x *CallSet) GetSampleId() string

func (*CallSet) GetVariantSetIds

func (x *CallSet) GetVariantSetIds() []string

func (*CallSet) ProtoMessage

func (*CallSet) ProtoMessage()

func (*CallSet) ProtoReflect

func (x *CallSet) ProtoReflect() protoreflect.Message

func (*CallSet) Reset

func (x *CallSet) Reset()

func (*CallSet) String

func (x *CallSet) String() string

type CigarUnit

type CigarUnit struct {
	Operation CigarUnit_Operation `protobuf:"varint,1,opt,name=operation,proto3,enum=google.genomics.v1.CigarUnit_Operation" json:"operation,omitempty"`
	// The number of genomic bases that the operation runs for. Required.
	OperationLength int64 `protobuf:"varint,2,opt,name=operation_length,json=operationLength,proto3" json:"operation_length,omitempty"`
	// `referenceSequence` is only used at mismatches
	// (`SEQUENCE_MISMATCH`) and deletions (`DELETE`).
	// Filling this field replaces SAM's MD tag. If the relevant information is
	// not available, this field is unset.
	ReferenceSequence string `protobuf:"bytes,3,opt,name=reference_sequence,json=referenceSequence,proto3" json:"reference_sequence,omitempty"`
	// contains filtered or unexported fields
}

A single CIGAR operation.

func (*CigarUnit) Descriptor deprecated

func (*CigarUnit) Descriptor() ([]byte, []int)

Deprecated: Use CigarUnit.ProtoReflect.Descriptor instead.

func (*CigarUnit) GetOperation

func (x *CigarUnit) GetOperation() CigarUnit_Operation

func (*CigarUnit) GetOperationLength

func (x *CigarUnit) GetOperationLength() int64

func (*CigarUnit) GetReferenceSequence

func (x *CigarUnit) GetReferenceSequence() string

func (*CigarUnit) ProtoMessage

func (*CigarUnit) ProtoMessage()

func (*CigarUnit) ProtoReflect

func (x *CigarUnit) ProtoReflect() protoreflect.Message

func (*CigarUnit) Reset

func (x *CigarUnit) Reset()

func (*CigarUnit) String

func (x *CigarUnit) String() string

type CigarUnit_Operation

type CigarUnit_Operation int32

Describes the different types of CIGAR alignment operations that exist. Used wherever CIGAR alignments are used.

const (
	CigarUnit_OPERATION_UNSPECIFIED CigarUnit_Operation = 0
	// An alignment match indicates that a sequence can be aligned to the
	// reference without evidence of an INDEL. Unlike the
	// `SEQUENCE_MATCH` and `SEQUENCE_MISMATCH` operators,
	// the `ALIGNMENT_MATCH` operator does not indicate whether the
	// reference and read sequences are an exact match. This operator is
	// equivalent to SAM's `M`.
	CigarUnit_ALIGNMENT_MATCH CigarUnit_Operation = 1
	// The insert operator indicates that the read contains evidence of bases
	// being inserted into the reference. This operator is equivalent to SAM's
	// `I`.
	CigarUnit_INSERT CigarUnit_Operation = 2
	// The delete operator indicates that the read contains evidence of bases
	// being deleted from the reference. This operator is equivalent to SAM's
	// `D`.
	CigarUnit_DELETE CigarUnit_Operation = 3
	// The skip operator indicates that this read skips a long segment of the
	// reference, but the bases have not been deleted. This operator is commonly
	// used when working with RNA-seq data, where reads may skip long segments
	// of the reference between exons. This operator is equivalent to SAM's
	// `N`.
	CigarUnit_SKIP CigarUnit_Operation = 4
	// The soft clip operator indicates that bases at the start/end of a read
	// have not been considered during alignment. This may occur if the majority
	// of a read maps, except for low quality bases at the start/end of a read.
	// This operator is equivalent to SAM's `S`. Bases that are soft
	// clipped will still be stored in the read.
	CigarUnit_CLIP_SOFT CigarUnit_Operation = 5
	// The hard clip operator indicates that bases at the start/end of a read
	// have been omitted from this alignment. This may occur if this linear
	// alignment is part of a chimeric alignment, or if the read has been
	// trimmed (for example, during error correction or to trim poly-A tails for
	// RNA-seq). This operator is equivalent to SAM's `H`.
	CigarUnit_CLIP_HARD CigarUnit_Operation = 6
	// The pad operator indicates that there is padding in an alignment. This
	// operator is equivalent to SAM's `P`.
	CigarUnit_PAD CigarUnit_Operation = 7
	// This operator indicates that this portion of the aligned sequence exactly
	// matches the reference. This operator is equivalent to SAM's `=`.
	CigarUnit_SEQUENCE_MATCH CigarUnit_Operation = 8
	// This operator indicates that this portion of the aligned sequence is an
	// alignment match to the reference, but a sequence mismatch. This can
	// indicate a SNP or a read error. This operator is equivalent to SAM's
	// `X`.
	CigarUnit_SEQUENCE_MISMATCH CigarUnit_Operation = 9
)

func (CigarUnit_Operation) Descriptor

func (CigarUnit_Operation) Enum

func (CigarUnit_Operation) EnumDescriptor deprecated

func (CigarUnit_Operation) EnumDescriptor() ([]byte, []int)

Deprecated: Use CigarUnit_Operation.Descriptor instead.

func (CigarUnit_Operation) Number

func (CigarUnit_Operation) String

func (x CigarUnit_Operation) String() string

func (CigarUnit_Operation) Type

type CoverageBucket

type CoverageBucket struct {

	// The genomic coordinate range spanned by this bucket.
	Range *Range `protobuf:"bytes,1,opt,name=range,proto3" json:"range,omitempty"`
	// The average number of reads which are aligned to each individual
	// reference base in this bucket.
	MeanCoverage float32 `protobuf:"fixed32,2,opt,name=mean_coverage,json=meanCoverage,proto3" json:"mean_coverage,omitempty"`
	// contains filtered or unexported fields
}

A bucket over which read coverage has been precomputed. A bucket corresponds to a specific range of the reference sequence.

func (*CoverageBucket) Descriptor deprecated

func (*CoverageBucket) Descriptor() ([]byte, []int)

Deprecated: Use CoverageBucket.ProtoReflect.Descriptor instead.

func (*CoverageBucket) GetMeanCoverage

func (x *CoverageBucket) GetMeanCoverage() float32

func (*CoverageBucket) GetRange

func (x *CoverageBucket) GetRange() *Range

func (*CoverageBucket) ProtoMessage

func (*CoverageBucket) ProtoMessage()

func (*CoverageBucket) ProtoReflect

func (x *CoverageBucket) ProtoReflect() protoreflect.Message

func (*CoverageBucket) Reset

func (x *CoverageBucket) Reset()

func (*CoverageBucket) String

func (x *CoverageBucket) String() string

type CreateAnnotationRequest

type CreateAnnotationRequest struct {

	// The annotation to be created.
	Annotation *Annotation `protobuf:"bytes,1,opt,name=annotation,proto3" json:"annotation,omitempty"`
	// contains filtered or unexported fields
}

func (*CreateAnnotationRequest) Descriptor deprecated

func (*CreateAnnotationRequest) Descriptor() ([]byte, []int)

Deprecated: Use CreateAnnotationRequest.ProtoReflect.Descriptor instead.

func (*CreateAnnotationRequest) GetAnnotation

func (x *CreateAnnotationRequest) GetAnnotation() *Annotation

func (*CreateAnnotationRequest) ProtoMessage

func (*CreateAnnotationRequest) ProtoMessage()

func (*CreateAnnotationRequest) ProtoReflect

func (x *CreateAnnotationRequest) ProtoReflect() protoreflect.Message

func (*CreateAnnotationRequest) Reset

func (x *CreateAnnotationRequest) Reset()

func (*CreateAnnotationRequest) String

func (x *CreateAnnotationRequest) String() string

type CreateAnnotationSetRequest

type CreateAnnotationSetRequest struct {

	// The annotation set to create.
	AnnotationSet *AnnotationSet `protobuf:"bytes,1,opt,name=annotation_set,json=annotationSet,proto3" json:"annotation_set,omitempty"`
	// contains filtered or unexported fields
}

func (*CreateAnnotationSetRequest) Descriptor deprecated

func (*CreateAnnotationSetRequest) Descriptor() ([]byte, []int)

Deprecated: Use CreateAnnotationSetRequest.ProtoReflect.Descriptor instead.

func (*CreateAnnotationSetRequest) GetAnnotationSet

func (x *CreateAnnotationSetRequest) GetAnnotationSet() *AnnotationSet

func (*CreateAnnotationSetRequest) ProtoMessage

func (*CreateAnnotationSetRequest) ProtoMessage()

func (*CreateAnnotationSetRequest) ProtoReflect

func (*CreateAnnotationSetRequest) Reset

func (x *CreateAnnotationSetRequest) Reset()

func (*CreateAnnotationSetRequest) String

func (x *CreateAnnotationSetRequest) String() string

type CreateCallSetRequest

type CreateCallSetRequest struct {

	// The call set to be created.
	CallSet *CallSet `protobuf:"bytes,1,opt,name=call_set,json=callSet,proto3" json:"call_set,omitempty"`
	// contains filtered or unexported fields
}

func (*CreateCallSetRequest) Descriptor deprecated

func (*CreateCallSetRequest) Descriptor() ([]byte, []int)

Deprecated: Use CreateCallSetRequest.ProtoReflect.Descriptor instead.

func (*CreateCallSetRequest) GetCallSet

func (x *CreateCallSetRequest) GetCallSet() *CallSet

func (*CreateCallSetRequest) ProtoMessage

func (*CreateCallSetRequest) ProtoMessage()

func (*CreateCallSetRequest) ProtoReflect

func (x *CreateCallSetRequest) ProtoReflect() protoreflect.Message

func (*CreateCallSetRequest) Reset

func (x *CreateCallSetRequest) Reset()

func (*CreateCallSetRequest) String

func (x *CreateCallSetRequest) String() string

type CreateDatasetRequest

type CreateDatasetRequest struct {

	// The dataset to be created. Must contain projectId and name.
	Dataset *Dataset `protobuf:"bytes,1,opt,name=dataset,proto3" json:"dataset,omitempty"`
	// contains filtered or unexported fields
}

func (*CreateDatasetRequest) Descriptor deprecated

func (*CreateDatasetRequest) Descriptor() ([]byte, []int)

Deprecated: Use CreateDatasetRequest.ProtoReflect.Descriptor instead.

func (*CreateDatasetRequest) GetDataset

func (x *CreateDatasetRequest) GetDataset() *Dataset

func (*CreateDatasetRequest) ProtoMessage

func (*CreateDatasetRequest) ProtoMessage()

func (*CreateDatasetRequest) ProtoReflect

func (x *CreateDatasetRequest) ProtoReflect() protoreflect.Message

func (*CreateDatasetRequest) Reset

func (x *CreateDatasetRequest) Reset()

func (*CreateDatasetRequest) String

func (x *CreateDatasetRequest) String() string

type CreateVariantRequest

type CreateVariantRequest struct {

	// The variant to be created.
	Variant *Variant `protobuf:"bytes,1,opt,name=variant,proto3" json:"variant,omitempty"`
	// contains filtered or unexported fields
}

func (*CreateVariantRequest) Descriptor deprecated

func (*CreateVariantRequest) Descriptor() ([]byte, []int)

Deprecated: Use CreateVariantRequest.ProtoReflect.Descriptor instead.

func (*CreateVariantRequest) GetVariant

func (x *CreateVariantRequest) GetVariant() *Variant

func (*CreateVariantRequest) ProtoMessage

func (*CreateVariantRequest) ProtoMessage()

func (*CreateVariantRequest) ProtoReflect

func (x *CreateVariantRequest) ProtoReflect() protoreflect.Message

func (*CreateVariantRequest) Reset

func (x *CreateVariantRequest) Reset()

func (*CreateVariantRequest) String

func (x *CreateVariantRequest) String() string

type CreateVariantSetRequest

type CreateVariantSetRequest struct {

	// Required. The variant set to be created. Must have a valid `datasetId`.
	VariantSet *VariantSet `protobuf:"bytes,1,opt,name=variant_set,json=variantSet,proto3" json:"variant_set,omitempty"`
	// contains filtered or unexported fields
}

The CreateVariantSet request

func (*CreateVariantSetRequest) Descriptor deprecated

func (*CreateVariantSetRequest) Descriptor() ([]byte, []int)

Deprecated: Use CreateVariantSetRequest.ProtoReflect.Descriptor instead.

func (*CreateVariantSetRequest) GetVariantSet

func (x *CreateVariantSetRequest) GetVariantSet() *VariantSet

func (*CreateVariantSetRequest) ProtoMessage

func (*CreateVariantSetRequest) ProtoMessage()

func (*CreateVariantSetRequest) ProtoReflect

func (x *CreateVariantSetRequest) ProtoReflect() protoreflect.Message

func (*CreateVariantSetRequest) Reset

func (x *CreateVariantSetRequest) Reset()

func (*CreateVariantSetRequest) String

func (x *CreateVariantSetRequest) String() string

type Dataset

type Dataset struct {

	// The server-generated dataset ID, unique across all datasets.
	Id string `protobuf:"bytes,1,opt,name=id,proto3" json:"id,omitempty"`
	// The Google Cloud project ID that this dataset belongs to.
	ProjectId string `protobuf:"bytes,2,opt,name=project_id,json=projectId,proto3" json:"project_id,omitempty"`
	// The dataset name.
	Name string `protobuf:"bytes,3,opt,name=name,proto3" json:"name,omitempty"`
	// The time this dataset was created, in seconds from the epoch.
	CreateTime *timestamppb.Timestamp `protobuf:"bytes,4,opt,name=create_time,json=createTime,proto3" json:"create_time,omitempty"`
	// contains filtered or unexported fields
}

A Dataset is a collection of genomic data.

For more genomics resource definitions, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)

func (*Dataset) Descriptor deprecated

func (*Dataset) Descriptor() ([]byte, []int)

Deprecated: Use Dataset.ProtoReflect.Descriptor instead.

func (*Dataset) GetCreateTime

func (x *Dataset) GetCreateTime() *timestamppb.Timestamp

func (*Dataset) GetId

func (x *Dataset) GetId() string

func (*Dataset) GetName

func (x *Dataset) GetName() string

func (*Dataset) GetProjectId

func (x *Dataset) GetProjectId() string

func (*Dataset) ProtoMessage

func (*Dataset) ProtoMessage()

func (*Dataset) ProtoReflect

func (x *Dataset) ProtoReflect() protoreflect.Message

func (*Dataset) Reset

func (x *Dataset) Reset()

func (*Dataset) String

func (x *Dataset) String() string

type DatasetServiceV1Client

type DatasetServiceV1Client interface {
	// Lists datasets within a project.
	//
	// For the definitions of datasets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	ListDatasets(ctx context.Context, in *ListDatasetsRequest, opts ...grpc.CallOption) (*ListDatasetsResponse, error)
	// Creates a new dataset.
	//
	// For the definitions of datasets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	CreateDataset(ctx context.Context, in *CreateDatasetRequest, opts ...grpc.CallOption) (*Dataset, error)
	// Gets a dataset by ID.
	//
	// For the definitions of datasets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	GetDataset(ctx context.Context, in *GetDatasetRequest, opts ...grpc.CallOption) (*Dataset, error)
	// Updates a dataset.
	//
	// For the definitions of datasets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	//
	// This method supports patch semantics.
	UpdateDataset(ctx context.Context, in *UpdateDatasetRequest, opts ...grpc.CallOption) (*Dataset, error)
	// Deletes a dataset and all of its contents (all read group sets,
	// reference sets, variant sets, call sets, annotation sets, etc.)
	// This is reversible (up to one week after the deletion) via
	// the
	// [datasets.undelete][google.genomics.v1.DatasetServiceV1.UndeleteDataset]
	// operation.
	//
	// For the definitions of datasets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	DeleteDataset(ctx context.Context, in *DeleteDatasetRequest, opts ...grpc.CallOption) (*emptypb.Empty, error)
	// Undeletes a dataset by restoring a dataset which was deleted via this API.
	//
	// For the definitions of datasets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	//
	// This operation is only possible for a week after the deletion occurred.
	UndeleteDataset(ctx context.Context, in *UndeleteDatasetRequest, opts ...grpc.CallOption) (*Dataset, error)
	// Sets the access control policy on the specified dataset. Replaces any
	// existing policy.
	//
	// For the definitions of datasets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	//
	// See <a href="/iam/docs/managing-policies#setting_a_policy">Setting a
	// Policy</a> for more information.
	SetIamPolicy(ctx context.Context, in *v1.SetIamPolicyRequest, opts ...grpc.CallOption) (*v1.Policy, error)
	// Gets the access control policy for the dataset. This is empty if the
	// policy or resource does not exist.
	//
	// See <a href="/iam/docs/managing-policies#getting_a_policy">Getting a
	// Policy</a> for more information.
	//
	// For the definitions of datasets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	GetIamPolicy(ctx context.Context, in *v1.GetIamPolicyRequest, opts ...grpc.CallOption) (*v1.Policy, error)
	// Returns permissions that a caller has on the specified resource.
	// See <a href="/iam/docs/managing-policies#testing_permissions">Testing
	// Permissions</a> for more information.
	//
	// For the definitions of datasets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	TestIamPermissions(ctx context.Context, in *v1.TestIamPermissionsRequest, opts ...grpc.CallOption) (*v1.TestIamPermissionsResponse, error)
}

DatasetServiceV1Client is the client API for DatasetServiceV1 service.

For semantics around ctx use and closing/ending streaming RPCs, please refer to https://godoc.org/google.golang.org/grpc#ClientConn.NewStream.

type DatasetServiceV1Server

type DatasetServiceV1Server interface {
	// Lists datasets within a project.
	//
	// For the definitions of datasets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	ListDatasets(context.Context, *ListDatasetsRequest) (*ListDatasetsResponse, error)
	// Creates a new dataset.
	//
	// For the definitions of datasets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	CreateDataset(context.Context, *CreateDatasetRequest) (*Dataset, error)
	// Gets a dataset by ID.
	//
	// For the definitions of datasets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	GetDataset(context.Context, *GetDatasetRequest) (*Dataset, error)
	// Updates a dataset.
	//
	// For the definitions of datasets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	//
	// This method supports patch semantics.
	UpdateDataset(context.Context, *UpdateDatasetRequest) (*Dataset, error)
	// Deletes a dataset and all of its contents (all read group sets,
	// reference sets, variant sets, call sets, annotation sets, etc.)
	// This is reversible (up to one week after the deletion) via
	// the
	// [datasets.undelete][google.genomics.v1.DatasetServiceV1.UndeleteDataset]
	// operation.
	//
	// For the definitions of datasets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	DeleteDataset(context.Context, *DeleteDatasetRequest) (*emptypb.Empty, error)
	// Undeletes a dataset by restoring a dataset which was deleted via this API.
	//
	// For the definitions of datasets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	//
	// This operation is only possible for a week after the deletion occurred.
	UndeleteDataset(context.Context, *UndeleteDatasetRequest) (*Dataset, error)
	// Sets the access control policy on the specified dataset. Replaces any
	// existing policy.
	//
	// For the definitions of datasets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	//
	// See <a href="/iam/docs/managing-policies#setting_a_policy">Setting a
	// Policy</a> for more information.
	SetIamPolicy(context.Context, *v1.SetIamPolicyRequest) (*v1.Policy, error)
	// Gets the access control policy for the dataset. This is empty if the
	// policy or resource does not exist.
	//
	// See <a href="/iam/docs/managing-policies#getting_a_policy">Getting a
	// Policy</a> for more information.
	//
	// For the definitions of datasets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	GetIamPolicy(context.Context, *v1.GetIamPolicyRequest) (*v1.Policy, error)
	// Returns permissions that a caller has on the specified resource.
	// See <a href="/iam/docs/managing-policies#testing_permissions">Testing
	// Permissions</a> for more information.
	//
	// For the definitions of datasets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	TestIamPermissions(context.Context, *v1.TestIamPermissionsRequest) (*v1.TestIamPermissionsResponse, error)
}

DatasetServiceV1Server is the server API for DatasetServiceV1 service.

type DeleteAnnotationRequest

type DeleteAnnotationRequest struct {

	// The ID of the annotation to be deleted.
	AnnotationId string `protobuf:"bytes,1,opt,name=annotation_id,json=annotationId,proto3" json:"annotation_id,omitempty"`
	// contains filtered or unexported fields
}

func (*DeleteAnnotationRequest) Descriptor deprecated

func (*DeleteAnnotationRequest) Descriptor() ([]byte, []int)

Deprecated: Use DeleteAnnotationRequest.ProtoReflect.Descriptor instead.

func (*DeleteAnnotationRequest) GetAnnotationId

func (x *DeleteAnnotationRequest) GetAnnotationId() string

func (*DeleteAnnotationRequest) ProtoMessage

func (*DeleteAnnotationRequest) ProtoMessage()

func (*DeleteAnnotationRequest) ProtoReflect

func (x *DeleteAnnotationRequest) ProtoReflect() protoreflect.Message

func (*DeleteAnnotationRequest) Reset

func (x *DeleteAnnotationRequest) Reset()

func (*DeleteAnnotationRequest) String

func (x *DeleteAnnotationRequest) String() string

type DeleteAnnotationSetRequest

type DeleteAnnotationSetRequest struct {

	// The ID of the annotation set to be deleted.
	AnnotationSetId string `protobuf:"bytes,1,opt,name=annotation_set_id,json=annotationSetId,proto3" json:"annotation_set_id,omitempty"`
	// contains filtered or unexported fields
}

func (*DeleteAnnotationSetRequest) Descriptor deprecated

func (*DeleteAnnotationSetRequest) Descriptor() ([]byte, []int)

Deprecated: Use DeleteAnnotationSetRequest.ProtoReflect.Descriptor instead.

func (*DeleteAnnotationSetRequest) GetAnnotationSetId

func (x *DeleteAnnotationSetRequest) GetAnnotationSetId() string

func (*DeleteAnnotationSetRequest) ProtoMessage

func (*DeleteAnnotationSetRequest) ProtoMessage()

func (*DeleteAnnotationSetRequest) ProtoReflect

func (*DeleteAnnotationSetRequest) Reset

func (x *DeleteAnnotationSetRequest) Reset()

func (*DeleteAnnotationSetRequest) String

func (x *DeleteAnnotationSetRequest) String() string

type DeleteCallSetRequest

type DeleteCallSetRequest struct {

	// The ID of the call set to be deleted.
	CallSetId string `protobuf:"bytes,1,opt,name=call_set_id,json=callSetId,proto3" json:"call_set_id,omitempty"`
	// contains filtered or unexported fields
}

func (*DeleteCallSetRequest) Descriptor deprecated

func (*DeleteCallSetRequest) Descriptor() ([]byte, []int)

Deprecated: Use DeleteCallSetRequest.ProtoReflect.Descriptor instead.

func (*DeleteCallSetRequest) GetCallSetId

func (x *DeleteCallSetRequest) GetCallSetId() string

func (*DeleteCallSetRequest) ProtoMessage

func (*DeleteCallSetRequest) ProtoMessage()

func (*DeleteCallSetRequest) ProtoReflect

func (x *DeleteCallSetRequest) ProtoReflect() protoreflect.Message

func (*DeleteCallSetRequest) Reset

func (x *DeleteCallSetRequest) Reset()

func (*DeleteCallSetRequest) String

func (x *DeleteCallSetRequest) String() string

type DeleteDatasetRequest

type DeleteDatasetRequest struct {

	// The ID of the dataset to be deleted.
	DatasetId string `protobuf:"bytes,1,opt,name=dataset_id,json=datasetId,proto3" json:"dataset_id,omitempty"`
	// contains filtered or unexported fields
}

func (*DeleteDatasetRequest) Descriptor deprecated

func (*DeleteDatasetRequest) Descriptor() ([]byte, []int)

Deprecated: Use DeleteDatasetRequest.ProtoReflect.Descriptor instead.

func (*DeleteDatasetRequest) GetDatasetId

func (x *DeleteDatasetRequest) GetDatasetId() string

func (*DeleteDatasetRequest) ProtoMessage

func (*DeleteDatasetRequest) ProtoMessage()

func (*DeleteDatasetRequest) ProtoReflect

func (x *DeleteDatasetRequest) ProtoReflect() protoreflect.Message

func (*DeleteDatasetRequest) Reset

func (x *DeleteDatasetRequest) Reset()

func (*DeleteDatasetRequest) String

func (x *DeleteDatasetRequest) String() string

type DeleteReadGroupSetRequest

type DeleteReadGroupSetRequest struct {

	// The ID of the read group set to be deleted. The caller must have WRITE
	// permissions to the dataset associated with this read group set.
	ReadGroupSetId string `protobuf:"bytes,1,opt,name=read_group_set_id,json=readGroupSetId,proto3" json:"read_group_set_id,omitempty"`
	// contains filtered or unexported fields
}

func (*DeleteReadGroupSetRequest) Descriptor deprecated

func (*DeleteReadGroupSetRequest) Descriptor() ([]byte, []int)

Deprecated: Use DeleteReadGroupSetRequest.ProtoReflect.Descriptor instead.

func (*DeleteReadGroupSetRequest) GetReadGroupSetId

func (x *DeleteReadGroupSetRequest) GetReadGroupSetId() string

func (*DeleteReadGroupSetRequest) ProtoMessage

func (*DeleteReadGroupSetRequest) ProtoMessage()

func (*DeleteReadGroupSetRequest) ProtoReflect

func (*DeleteReadGroupSetRequest) Reset

func (x *DeleteReadGroupSetRequest) Reset()

func (*DeleteReadGroupSetRequest) String

func (x *DeleteReadGroupSetRequest) String() string

type DeleteVariantRequest

type DeleteVariantRequest struct {

	// The ID of the variant to be deleted.
	VariantId string `protobuf:"bytes,1,opt,name=variant_id,json=variantId,proto3" json:"variant_id,omitempty"`
	// contains filtered or unexported fields
}

func (*DeleteVariantRequest) Descriptor deprecated

func (*DeleteVariantRequest) Descriptor() ([]byte, []int)

Deprecated: Use DeleteVariantRequest.ProtoReflect.Descriptor instead.

func (*DeleteVariantRequest) GetVariantId

func (x *DeleteVariantRequest) GetVariantId() string

func (*DeleteVariantRequest) ProtoMessage

func (*DeleteVariantRequest) ProtoMessage()

func (*DeleteVariantRequest) ProtoReflect

func (x *DeleteVariantRequest) ProtoReflect() protoreflect.Message

func (*DeleteVariantRequest) Reset

func (x *DeleteVariantRequest) Reset()

func (*DeleteVariantRequest) String

func (x *DeleteVariantRequest) String() string

type DeleteVariantSetRequest

type DeleteVariantSetRequest struct {

	// The ID of the variant set to be deleted.
	VariantSetId string `protobuf:"bytes,1,opt,name=variant_set_id,json=variantSetId,proto3" json:"variant_set_id,omitempty"`
	// contains filtered or unexported fields
}

The delete variant set request.

func (*DeleteVariantSetRequest) Descriptor deprecated

func (*DeleteVariantSetRequest) Descriptor() ([]byte, []int)

Deprecated: Use DeleteVariantSetRequest.ProtoReflect.Descriptor instead.

func (*DeleteVariantSetRequest) GetVariantSetId

func (x *DeleteVariantSetRequest) GetVariantSetId() string

func (*DeleteVariantSetRequest) ProtoMessage

func (*DeleteVariantSetRequest) ProtoMessage()

func (*DeleteVariantSetRequest) ProtoReflect

func (x *DeleteVariantSetRequest) ProtoReflect() protoreflect.Message

func (*DeleteVariantSetRequest) Reset

func (x *DeleteVariantSetRequest) Reset()

func (*DeleteVariantSetRequest) String

func (x *DeleteVariantSetRequest) String() string

type ExportReadGroupSetRequest

type ExportReadGroupSetRequest struct {

	// Required. The Google Cloud project ID that owns this
	// export. The caller must have WRITE access to this project.
	ProjectId string `protobuf:"bytes,1,opt,name=project_id,json=projectId,proto3" json:"project_id,omitempty"`
	// Required. A Google Cloud Storage URI for the exported BAM file.
	// The currently authenticated user must have write access to the new file.
	// An error will be returned if the URI already contains data.
	ExportUri string `protobuf:"bytes,2,opt,name=export_uri,json=exportUri,proto3" json:"export_uri,omitempty"`
	// Required. The ID of the read group set to export. The caller must have
	// READ access to this read group set.
	ReadGroupSetId string `protobuf:"bytes,3,opt,name=read_group_set_id,json=readGroupSetId,proto3" json:"read_group_set_id,omitempty"`
	// The reference names to export. If this is not specified, all reference
	// sequences, including unmapped reads, are exported.
	// Use `*` to export only unmapped reads.
	ReferenceNames []string `protobuf:"bytes,4,rep,name=reference_names,json=referenceNames,proto3" json:"reference_names,omitempty"`
	// contains filtered or unexported fields
}

The read group set export request.

func (*ExportReadGroupSetRequest) Descriptor deprecated

func (*ExportReadGroupSetRequest) Descriptor() ([]byte, []int)

Deprecated: Use ExportReadGroupSetRequest.ProtoReflect.Descriptor instead.

func (*ExportReadGroupSetRequest) GetExportUri

func (x *ExportReadGroupSetRequest) GetExportUri() string

func (*ExportReadGroupSetRequest) GetProjectId

func (x *ExportReadGroupSetRequest) GetProjectId() string

func (*ExportReadGroupSetRequest) GetReadGroupSetId

func (x *ExportReadGroupSetRequest) GetReadGroupSetId() string

func (*ExportReadGroupSetRequest) GetReferenceNames

func (x *ExportReadGroupSetRequest) GetReferenceNames() []string

func (*ExportReadGroupSetRequest) ProtoMessage

func (*ExportReadGroupSetRequest) ProtoMessage()

func (*ExportReadGroupSetRequest) ProtoReflect

func (*ExportReadGroupSetRequest) Reset

func (x *ExportReadGroupSetRequest) Reset()

func (*ExportReadGroupSetRequest) String

func (x *ExportReadGroupSetRequest) String() string

type ExportVariantSetRequest

type ExportVariantSetRequest struct {

	// Required. The ID of the variant set that contains variant data which
	// should be exported. The caller must have READ access to this variant set.
	VariantSetId string `protobuf:"bytes,1,opt,name=variant_set_id,json=variantSetId,proto3" json:"variant_set_id,omitempty"`
	// If provided, only variant call information from the specified call sets
	// will be exported. By default all variant calls are exported.
	CallSetIds []string `protobuf:"bytes,2,rep,name=call_set_ids,json=callSetIds,proto3" json:"call_set_ids,omitempty"`
	// Required. The Google Cloud project ID that owns the destination
	// BigQuery dataset. The caller must have WRITE access to this project.  This
	// project will also own the resulting export job.
	ProjectId string `protobuf:"bytes,3,opt,name=project_id,json=projectId,proto3" json:"project_id,omitempty"`
	// The format for the exported data.
	Format ExportVariantSetRequest_Format `protobuf:"varint,4,opt,name=format,proto3,enum=google.genomics.v1.ExportVariantSetRequest_Format" json:"format,omitempty"`
	// Required. The BigQuery dataset to export data to. This dataset must already
	// exist. Note that this is distinct from the Genomics concept of "dataset".
	BigqueryDataset string `protobuf:"bytes,5,opt,name=bigquery_dataset,json=bigqueryDataset,proto3" json:"bigquery_dataset,omitempty"`
	// Required. The BigQuery table to export data to.
	// If the table doesn't exist, it will be created. If it already exists, it
	// will be overwritten.
	BigqueryTable string `protobuf:"bytes,6,opt,name=bigquery_table,json=bigqueryTable,proto3" json:"bigquery_table,omitempty"`
	// contains filtered or unexported fields
}

The variant data export request.

func (*ExportVariantSetRequest) Descriptor deprecated

func (*ExportVariantSetRequest) Descriptor() ([]byte, []int)

Deprecated: Use ExportVariantSetRequest.ProtoReflect.Descriptor instead.

func (*ExportVariantSetRequest) GetBigqueryDataset

func (x *ExportVariantSetRequest) GetBigqueryDataset() string

func (*ExportVariantSetRequest) GetBigqueryTable

func (x *ExportVariantSetRequest) GetBigqueryTable() string

func (*ExportVariantSetRequest) GetCallSetIds

func (x *ExportVariantSetRequest) GetCallSetIds() []string

func (*ExportVariantSetRequest) GetFormat

func (*ExportVariantSetRequest) GetProjectId

func (x *ExportVariantSetRequest) GetProjectId() string

func (*ExportVariantSetRequest) GetVariantSetId

func (x *ExportVariantSetRequest) GetVariantSetId() string

func (*ExportVariantSetRequest) ProtoMessage

func (*ExportVariantSetRequest) ProtoMessage()

func (*ExportVariantSetRequest) ProtoReflect

func (x *ExportVariantSetRequest) ProtoReflect() protoreflect.Message

func (*ExportVariantSetRequest) Reset

func (x *ExportVariantSetRequest) Reset()

func (*ExportVariantSetRequest) String

func (x *ExportVariantSetRequest) String() string

type ExportVariantSetRequest_Format

type ExportVariantSetRequest_Format int32
const (
	ExportVariantSetRequest_FORMAT_UNSPECIFIED ExportVariantSetRequest_Format = 0
	// Export the data to Google BigQuery.
	ExportVariantSetRequest_FORMAT_BIGQUERY ExportVariantSetRequest_Format = 1
)

func (ExportVariantSetRequest_Format) Descriptor

func (ExportVariantSetRequest_Format) Enum

func (ExportVariantSetRequest_Format) EnumDescriptor deprecated

func (ExportVariantSetRequest_Format) EnumDescriptor() ([]byte, []int)

Deprecated: Use ExportVariantSetRequest_Format.Descriptor instead.

func (ExportVariantSetRequest_Format) Number

func (ExportVariantSetRequest_Format) String

func (ExportVariantSetRequest_Format) Type

type ExternalId

type ExternalId struct {

	// The name of the source of this data.
	SourceName string `protobuf:"bytes,1,opt,name=source_name,json=sourceName,proto3" json:"source_name,omitempty"`
	// The id used by the source of this data.
	Id string `protobuf:"bytes,2,opt,name=id,proto3" json:"id,omitempty"`
	// contains filtered or unexported fields
}

func (*ExternalId) Descriptor deprecated

func (*ExternalId) Descriptor() ([]byte, []int)

Deprecated: Use ExternalId.ProtoReflect.Descriptor instead.

func (*ExternalId) GetId

func (x *ExternalId) GetId() string

func (*ExternalId) GetSourceName

func (x *ExternalId) GetSourceName() string

func (*ExternalId) ProtoMessage

func (*ExternalId) ProtoMessage()

func (*ExternalId) ProtoReflect

func (x *ExternalId) ProtoReflect() protoreflect.Message

func (*ExternalId) Reset

func (x *ExternalId) Reset()

func (*ExternalId) String

func (x *ExternalId) String() string

type GetAnnotationRequest

type GetAnnotationRequest struct {

	// The ID of the annotation to be retrieved.
	AnnotationId string `protobuf:"bytes,1,opt,name=annotation_id,json=annotationId,proto3" json:"annotation_id,omitempty"`
	// contains filtered or unexported fields
}

func (*GetAnnotationRequest) Descriptor deprecated

func (*GetAnnotationRequest) Descriptor() ([]byte, []int)

Deprecated: Use GetAnnotationRequest.ProtoReflect.Descriptor instead.

func (*GetAnnotationRequest) GetAnnotationId

func (x *GetAnnotationRequest) GetAnnotationId() string

func (*GetAnnotationRequest) ProtoMessage

func (*GetAnnotationRequest) ProtoMessage()

func (*GetAnnotationRequest) ProtoReflect

func (x *GetAnnotationRequest) ProtoReflect() protoreflect.Message

func (*GetAnnotationRequest) Reset

func (x *GetAnnotationRequest) Reset()

func (*GetAnnotationRequest) String

func (x *GetAnnotationRequest) String() string

type GetAnnotationSetRequest

type GetAnnotationSetRequest struct {

	// The ID of the annotation set to be retrieved.
	AnnotationSetId string `protobuf:"bytes,1,opt,name=annotation_set_id,json=annotationSetId,proto3" json:"annotation_set_id,omitempty"`
	// contains filtered or unexported fields
}

func (*GetAnnotationSetRequest) Descriptor deprecated

func (*GetAnnotationSetRequest) Descriptor() ([]byte, []int)

Deprecated: Use GetAnnotationSetRequest.ProtoReflect.Descriptor instead.

func (*GetAnnotationSetRequest) GetAnnotationSetId

func (x *GetAnnotationSetRequest) GetAnnotationSetId() string

func (*GetAnnotationSetRequest) ProtoMessage

func (*GetAnnotationSetRequest) ProtoMessage()

func (*GetAnnotationSetRequest) ProtoReflect

func (x *GetAnnotationSetRequest) ProtoReflect() protoreflect.Message

func (*GetAnnotationSetRequest) Reset

func (x *GetAnnotationSetRequest) Reset()

func (*GetAnnotationSetRequest) String

func (x *GetAnnotationSetRequest) String() string

type GetCallSetRequest

type GetCallSetRequest struct {

	// The ID of the call set.
	CallSetId string `protobuf:"bytes,1,opt,name=call_set_id,json=callSetId,proto3" json:"call_set_id,omitempty"`
	// contains filtered or unexported fields
}

func (*GetCallSetRequest) Descriptor deprecated

func (*GetCallSetRequest) Descriptor() ([]byte, []int)

Deprecated: Use GetCallSetRequest.ProtoReflect.Descriptor instead.

func (*GetCallSetRequest) GetCallSetId

func (x *GetCallSetRequest) GetCallSetId() string

func (*GetCallSetRequest) ProtoMessage

func (*GetCallSetRequest) ProtoMessage()

func (*GetCallSetRequest) ProtoReflect

func (x *GetCallSetRequest) ProtoReflect() protoreflect.Message

func (*GetCallSetRequest) Reset

func (x *GetCallSetRequest) Reset()

func (*GetCallSetRequest) String

func (x *GetCallSetRequest) String() string

type GetDatasetRequest

type GetDatasetRequest struct {

	// The ID of the dataset.
	DatasetId string `protobuf:"bytes,1,opt,name=dataset_id,json=datasetId,proto3" json:"dataset_id,omitempty"`
	// contains filtered or unexported fields
}

func (*GetDatasetRequest) Descriptor deprecated

func (*GetDatasetRequest) Descriptor() ([]byte, []int)

Deprecated: Use GetDatasetRequest.ProtoReflect.Descriptor instead.

func (*GetDatasetRequest) GetDatasetId

func (x *GetDatasetRequest) GetDatasetId() string

func (*GetDatasetRequest) ProtoMessage

func (*GetDatasetRequest) ProtoMessage()

func (*GetDatasetRequest) ProtoReflect

func (x *GetDatasetRequest) ProtoReflect() protoreflect.Message

func (*GetDatasetRequest) Reset

func (x *GetDatasetRequest) Reset()

func (*GetDatasetRequest) String

func (x *GetDatasetRequest) String() string

type GetReadGroupSetRequest

type GetReadGroupSetRequest struct {

	// The ID of the read group set.
	ReadGroupSetId string `protobuf:"bytes,1,opt,name=read_group_set_id,json=readGroupSetId,proto3" json:"read_group_set_id,omitempty"`
	// contains filtered or unexported fields
}

func (*GetReadGroupSetRequest) Descriptor deprecated

func (*GetReadGroupSetRequest) Descriptor() ([]byte, []int)

Deprecated: Use GetReadGroupSetRequest.ProtoReflect.Descriptor instead.

func (*GetReadGroupSetRequest) GetReadGroupSetId

func (x *GetReadGroupSetRequest) GetReadGroupSetId() string

func (*GetReadGroupSetRequest) ProtoMessage

func (*GetReadGroupSetRequest) ProtoMessage()

func (*GetReadGroupSetRequest) ProtoReflect

func (x *GetReadGroupSetRequest) ProtoReflect() protoreflect.Message

func (*GetReadGroupSetRequest) Reset

func (x *GetReadGroupSetRequest) Reset()

func (*GetReadGroupSetRequest) String

func (x *GetReadGroupSetRequest) String() string

type GetReferenceRequest

type GetReferenceRequest struct {

	// The ID of the reference.
	ReferenceId string `protobuf:"bytes,1,opt,name=reference_id,json=referenceId,proto3" json:"reference_id,omitempty"`
	// contains filtered or unexported fields
}

func (*GetReferenceRequest) Descriptor deprecated

func (*GetReferenceRequest) Descriptor() ([]byte, []int)

Deprecated: Use GetReferenceRequest.ProtoReflect.Descriptor instead.

func (*GetReferenceRequest) GetReferenceId

func (x *GetReferenceRequest) GetReferenceId() string

func (*GetReferenceRequest) ProtoMessage

func (*GetReferenceRequest) ProtoMessage()

func (*GetReferenceRequest) ProtoReflect

func (x *GetReferenceRequest) ProtoReflect() protoreflect.Message

func (*GetReferenceRequest) Reset

func (x *GetReferenceRequest) Reset()

func (*GetReferenceRequest) String

func (x *GetReferenceRequest) String() string

type GetReferenceSetRequest

type GetReferenceSetRequest struct {

	// The ID of the reference set.
	ReferenceSetId string `protobuf:"bytes,1,opt,name=reference_set_id,json=referenceSetId,proto3" json:"reference_set_id,omitempty"`
	// contains filtered or unexported fields
}

func (*GetReferenceSetRequest) Descriptor deprecated

func (*GetReferenceSetRequest) Descriptor() ([]byte, []int)

Deprecated: Use GetReferenceSetRequest.ProtoReflect.Descriptor instead.

func (*GetReferenceSetRequest) GetReferenceSetId

func (x *GetReferenceSetRequest) GetReferenceSetId() string

func (*GetReferenceSetRequest) ProtoMessage

func (*GetReferenceSetRequest) ProtoMessage()

func (*GetReferenceSetRequest) ProtoReflect

func (x *GetReferenceSetRequest) ProtoReflect() protoreflect.Message

func (*GetReferenceSetRequest) Reset

func (x *GetReferenceSetRequest) Reset()

func (*GetReferenceSetRequest) String

func (x *GetReferenceSetRequest) String() string

type GetVariantRequest

type GetVariantRequest struct {

	// The ID of the variant.
	VariantId string `protobuf:"bytes,1,opt,name=variant_id,json=variantId,proto3" json:"variant_id,omitempty"`
	// contains filtered or unexported fields
}

func (*GetVariantRequest) Descriptor deprecated

func (*GetVariantRequest) Descriptor() ([]byte, []int)

Deprecated: Use GetVariantRequest.ProtoReflect.Descriptor instead.

func (*GetVariantRequest) GetVariantId

func (x *GetVariantRequest) GetVariantId() string

func (*GetVariantRequest) ProtoMessage

func (*GetVariantRequest) ProtoMessage()

func (*GetVariantRequest) ProtoReflect

func (x *GetVariantRequest) ProtoReflect() protoreflect.Message

func (*GetVariantRequest) Reset

func (x *GetVariantRequest) Reset()

func (*GetVariantRequest) String

func (x *GetVariantRequest) String() string

type GetVariantSetRequest

type GetVariantSetRequest struct {

	// Required. The ID of the variant set.
	VariantSetId string `protobuf:"bytes,1,opt,name=variant_set_id,json=variantSetId,proto3" json:"variant_set_id,omitempty"`
	// contains filtered or unexported fields
}

The variant set request.

func (*GetVariantSetRequest) Descriptor deprecated

func (*GetVariantSetRequest) Descriptor() ([]byte, []int)

Deprecated: Use GetVariantSetRequest.ProtoReflect.Descriptor instead.

func (*GetVariantSetRequest) GetVariantSetId

func (x *GetVariantSetRequest) GetVariantSetId() string

func (*GetVariantSetRequest) ProtoMessage

func (*GetVariantSetRequest) ProtoMessage()

func (*GetVariantSetRequest) ProtoReflect

func (x *GetVariantSetRequest) ProtoReflect() protoreflect.Message

func (*GetVariantSetRequest) Reset

func (x *GetVariantSetRequest) Reset()

func (*GetVariantSetRequest) String

func (x *GetVariantSetRequest) String() string

type ImportReadGroupSetsRequest

type ImportReadGroupSetsRequest struct {

	// Required. The ID of the dataset these read group sets will belong to. The
	// caller must have WRITE permissions to this dataset.
	DatasetId string `protobuf:"bytes,1,opt,name=dataset_id,json=datasetId,proto3" json:"dataset_id,omitempty"`
	// The reference set to which the imported read group sets are aligned to, if
	// any. The reference names of this reference set must be a superset of those
	// found in the imported file headers. If no reference set id is provided, a
	// best effort is made to associate with a matching reference set.
	ReferenceSetId string `protobuf:"bytes,4,opt,name=reference_set_id,json=referenceSetId,proto3" json:"reference_set_id,omitempty"`
	// A list of URIs pointing at [BAM
	// files](https://samtools.github.io/hts-specs/SAMv1.pdf)
	// in Google Cloud Storage.
	// Those URIs can include wildcards (*), but do not add or remove
	// matching files before import has completed.
	//
	// Note that Google Cloud Storage object listing is only eventually
	// consistent: files added may be not be immediately visible to
	// everyone. Thus, if using a wildcard it is preferable not to start
	// the import immediately after the files are created.
	SourceUris []string `protobuf:"bytes,2,rep,name=source_uris,json=sourceUris,proto3" json:"source_uris,omitempty"`
	// The partition strategy describes how read groups are partitioned into read
	// group sets.
	PartitionStrategy ImportReadGroupSetsRequest_PartitionStrategy `` /* 182-byte string literal not displayed */
	// contains filtered or unexported fields
}

The read group set import request.

func (*ImportReadGroupSetsRequest) Descriptor deprecated

func (*ImportReadGroupSetsRequest) Descriptor() ([]byte, []int)

Deprecated: Use ImportReadGroupSetsRequest.ProtoReflect.Descriptor instead.

func (*ImportReadGroupSetsRequest) GetDatasetId

func (x *ImportReadGroupSetsRequest) GetDatasetId() string

func (*ImportReadGroupSetsRequest) GetPartitionStrategy

func (*ImportReadGroupSetsRequest) GetReferenceSetId

func (x *ImportReadGroupSetsRequest) GetReferenceSetId() string

func (*ImportReadGroupSetsRequest) GetSourceUris

func (x *ImportReadGroupSetsRequest) GetSourceUris() []string

func (*ImportReadGroupSetsRequest) ProtoMessage

func (*ImportReadGroupSetsRequest) ProtoMessage()

func (*ImportReadGroupSetsRequest) ProtoReflect

func (*ImportReadGroupSetsRequest) Reset

func (x *ImportReadGroupSetsRequest) Reset()

func (*ImportReadGroupSetsRequest) String

func (x *ImportReadGroupSetsRequest) String() string

type ImportReadGroupSetsRequest_PartitionStrategy

type ImportReadGroupSetsRequest_PartitionStrategy int32
const (
	ImportReadGroupSetsRequest_PARTITION_STRATEGY_UNSPECIFIED ImportReadGroupSetsRequest_PartitionStrategy = 0
	// In most cases, this strategy yields one read group set per file. This is
	// the default behavior.
	//
	// Allocate one read group set per file per sample. For BAM files, read
	// groups are considered to share a sample if they have identical sample
	// names. Furthermore, all reads for each file which do not belong to a read
	// group, if any, will be grouped into a single read group set per-file.
	ImportReadGroupSetsRequest_PER_FILE_PER_SAMPLE ImportReadGroupSetsRequest_PartitionStrategy = 1
	// Includes all read groups in all imported files into a single read group
	// set. Requires that the headers for all imported files are equivalent. All
	// reads which do not belong to a read group, if any, will be grouped into a
	// separate read group set.
	ImportReadGroupSetsRequest_MERGE_ALL ImportReadGroupSetsRequest_PartitionStrategy = 2
)

func (ImportReadGroupSetsRequest_PartitionStrategy) Descriptor

func (ImportReadGroupSetsRequest_PartitionStrategy) Enum

func (ImportReadGroupSetsRequest_PartitionStrategy) EnumDescriptor deprecated

func (ImportReadGroupSetsRequest_PartitionStrategy) EnumDescriptor() ([]byte, []int)

Deprecated: Use ImportReadGroupSetsRequest_PartitionStrategy.Descriptor instead.

func (ImportReadGroupSetsRequest_PartitionStrategy) Number

func (ImportReadGroupSetsRequest_PartitionStrategy) String

func (ImportReadGroupSetsRequest_PartitionStrategy) Type

type ImportReadGroupSetsResponse

type ImportReadGroupSetsResponse struct {

	// IDs of the read group sets that were created.
	ReadGroupSetIds []string `protobuf:"bytes,1,rep,name=read_group_set_ids,json=readGroupSetIds,proto3" json:"read_group_set_ids,omitempty"`
	// contains filtered or unexported fields
}

The read group set import response.

func (*ImportReadGroupSetsResponse) Descriptor deprecated

func (*ImportReadGroupSetsResponse) Descriptor() ([]byte, []int)

Deprecated: Use ImportReadGroupSetsResponse.ProtoReflect.Descriptor instead.

func (*ImportReadGroupSetsResponse) GetReadGroupSetIds

func (x *ImportReadGroupSetsResponse) GetReadGroupSetIds() []string

func (*ImportReadGroupSetsResponse) ProtoMessage

func (*ImportReadGroupSetsResponse) ProtoMessage()

func (*ImportReadGroupSetsResponse) ProtoReflect

func (*ImportReadGroupSetsResponse) Reset

func (x *ImportReadGroupSetsResponse) Reset()

func (*ImportReadGroupSetsResponse) String

func (x *ImportReadGroupSetsResponse) String() string

type ImportVariantsRequest

type ImportVariantsRequest struct {

	// Required. The variant set to which variant data should be imported.
	VariantSetId string `protobuf:"bytes,1,opt,name=variant_set_id,json=variantSetId,proto3" json:"variant_set_id,omitempty"`
	// A list of URIs referencing variant files in Google Cloud Storage. URIs can
	// include wildcards [as described
	// here](https://cloud.google.com/storage/docs/gsutil/addlhelp/WildcardNames).
	// Note that recursive wildcards ('**') are not supported.
	SourceUris []string `protobuf:"bytes,2,rep,name=source_uris,json=sourceUris,proto3" json:"source_uris,omitempty"`
	// The format of the variant data being imported. If unspecified, defaults to
	// to `VCF`.
	Format ImportVariantsRequest_Format `protobuf:"varint,3,opt,name=format,proto3,enum=google.genomics.v1.ImportVariantsRequest_Format" json:"format,omitempty"`
	// Convert reference names to the canonical representation.
	// hg19 haploytypes (those reference names containing "_hap")
	// are not modified in any way.
	// All other reference names are modified according to the following rules:
	// The reference name is capitalized.
	// The "chr" prefix is dropped for all autosomes and sex chromsomes.
	// For example "chr17" becomes "17" and "chrX" becomes "X".
	// All mitochondrial chromosomes ("chrM", "chrMT", etc) become "MT".
	NormalizeReferenceNames bool `` /* 133-byte string literal not displayed */
	// A mapping between info field keys and the InfoMergeOperations to
	// be performed on them. This is plumbed down to the MergeVariantRequests
	// generated by the resulting import job.
	InfoMergeConfig map[string]InfoMergeOperation `` /* 240-byte string literal not displayed */
	// contains filtered or unexported fields
}

The variant data import request.

func (*ImportVariantsRequest) Descriptor deprecated

func (*ImportVariantsRequest) Descriptor() ([]byte, []int)

Deprecated: Use ImportVariantsRequest.ProtoReflect.Descriptor instead.

func (*ImportVariantsRequest) GetFormat

func (*ImportVariantsRequest) GetInfoMergeConfig

func (x *ImportVariantsRequest) GetInfoMergeConfig() map[string]InfoMergeOperation

func (*ImportVariantsRequest) GetNormalizeReferenceNames

func (x *ImportVariantsRequest) GetNormalizeReferenceNames() bool

func (*ImportVariantsRequest) GetSourceUris

func (x *ImportVariantsRequest) GetSourceUris() []string

func (*ImportVariantsRequest) GetVariantSetId

func (x *ImportVariantsRequest) GetVariantSetId() string

func (*ImportVariantsRequest) ProtoMessage

func (*ImportVariantsRequest) ProtoMessage()

func (*ImportVariantsRequest) ProtoReflect

func (x *ImportVariantsRequest) ProtoReflect() protoreflect.Message

func (*ImportVariantsRequest) Reset

func (x *ImportVariantsRequest) Reset()

func (*ImportVariantsRequest) String

func (x *ImportVariantsRequest) String() string

type ImportVariantsRequest_Format

type ImportVariantsRequest_Format int32
const (
	ImportVariantsRequest_FORMAT_UNSPECIFIED ImportVariantsRequest_Format = 0
	// VCF (Variant Call Format). The VCF files may be gzip compressed. gVCF is
	// also supported.
	ImportVariantsRequest_FORMAT_VCF ImportVariantsRequest_Format = 1
	// Complete Genomics masterVarBeta format. The masterVarBeta files may
	// be bzip2 compressed.
	ImportVariantsRequest_FORMAT_COMPLETE_GENOMICS ImportVariantsRequest_Format = 2
)

func (ImportVariantsRequest_Format) Descriptor

func (ImportVariantsRequest_Format) Enum

func (ImportVariantsRequest_Format) EnumDescriptor deprecated

func (ImportVariantsRequest_Format) EnumDescriptor() ([]byte, []int)

Deprecated: Use ImportVariantsRequest_Format.Descriptor instead.

func (ImportVariantsRequest_Format) Number

func (ImportVariantsRequest_Format) String

func (ImportVariantsRequest_Format) Type

type ImportVariantsResponse

type ImportVariantsResponse struct {

	// IDs of the call sets created during the import.
	CallSetIds []string `protobuf:"bytes,1,rep,name=call_set_ids,json=callSetIds,proto3" json:"call_set_ids,omitempty"`
	// contains filtered or unexported fields
}

The variant data import response.

func (*ImportVariantsResponse) Descriptor deprecated

func (*ImportVariantsResponse) Descriptor() ([]byte, []int)

Deprecated: Use ImportVariantsResponse.ProtoReflect.Descriptor instead.

func (*ImportVariantsResponse) GetCallSetIds

func (x *ImportVariantsResponse) GetCallSetIds() []string

func (*ImportVariantsResponse) ProtoMessage

func (*ImportVariantsResponse) ProtoMessage()

func (*ImportVariantsResponse) ProtoReflect

func (x *ImportVariantsResponse) ProtoReflect() protoreflect.Message

func (*ImportVariantsResponse) Reset

func (x *ImportVariantsResponse) Reset()

func (*ImportVariantsResponse) String

func (x *ImportVariantsResponse) String() string

type InfoMergeOperation

type InfoMergeOperation int32

Operations to be performed during import on Variant info fields. These operations are set for each info field in the info_merge_config map of ImportVariantsRequest, which is plumbed down to the MergeVariantRequests generated by the import job.

const (
	InfoMergeOperation_INFO_MERGE_OPERATION_UNSPECIFIED InfoMergeOperation = 0
	// By default, Variant info fields are persisted if the Variant doesn't
	// already exist in the variantset.  If the Variant is equivalent to a
	// Variant already in the variantset, the incoming Variant's info field
	// is ignored in favor of that of the already persisted Variant.
	InfoMergeOperation_IGNORE_NEW InfoMergeOperation = 1
	// This operation removes an info field from the incoming Variant
	// and persists this info field in each of the incoming Variant's Calls.
	InfoMergeOperation_MOVE_TO_CALLS InfoMergeOperation = 2
)

func (InfoMergeOperation) Descriptor

func (InfoMergeOperation) Enum

func (InfoMergeOperation) EnumDescriptor deprecated

func (InfoMergeOperation) EnumDescriptor() ([]byte, []int)

Deprecated: Use InfoMergeOperation.Descriptor instead.

func (InfoMergeOperation) Number

func (InfoMergeOperation) String

func (x InfoMergeOperation) String() string

func (InfoMergeOperation) Type

type LinearAlignment

type LinearAlignment struct {

	// The position of this alignment.
	Position *Position `protobuf:"bytes,1,opt,name=position,proto3" json:"position,omitempty"`
	// The mapping quality of this alignment. Represents how likely
	// the read maps to this position as opposed to other locations.
	//
	// Specifically, this is -10 log10 Pr(mapping position is wrong), rounded to
	// the nearest integer.
	MappingQuality int32 `protobuf:"varint,2,opt,name=mapping_quality,json=mappingQuality,proto3" json:"mapping_quality,omitempty"`
	// Represents the local alignment of this sequence (alignment matches, indels,
	// etc) against the reference.
	Cigar []*CigarUnit `protobuf:"bytes,3,rep,name=cigar,proto3" json:"cigar,omitempty"`
	// contains filtered or unexported fields
}

A linear alignment can be represented by one CIGAR string. Describes the mapped position and local alignment of the read to the reference.

func (*LinearAlignment) Descriptor deprecated

func (*LinearAlignment) Descriptor() ([]byte, []int)

Deprecated: Use LinearAlignment.ProtoReflect.Descriptor instead.

func (*LinearAlignment) GetCigar

func (x *LinearAlignment) GetCigar() []*CigarUnit

func (*LinearAlignment) GetMappingQuality

func (x *LinearAlignment) GetMappingQuality() int32

func (*LinearAlignment) GetPosition

func (x *LinearAlignment) GetPosition() *Position

func (*LinearAlignment) ProtoMessage

func (*LinearAlignment) ProtoMessage()

func (*LinearAlignment) ProtoReflect

func (x *LinearAlignment) ProtoReflect() protoreflect.Message

func (*LinearAlignment) Reset

func (x *LinearAlignment) Reset()

func (*LinearAlignment) String

func (x *LinearAlignment) String() string

type ListBasesRequest

type ListBasesRequest struct {

	// The ID of the reference.
	ReferenceId string `protobuf:"bytes,1,opt,name=reference_id,json=referenceId,proto3" json:"reference_id,omitempty"`
	// The start position (0-based) of this query. Defaults to 0.
	Start int64 `protobuf:"varint,2,opt,name=start,proto3" json:"start,omitempty"`
	// The end position (0-based, exclusive) of this query. Defaults to the length
	// of this reference.
	End int64 `protobuf:"varint,3,opt,name=end,proto3" json:"end,omitempty"`
	// The continuation token, which is used to page through large result sets.
	// To get the next page of results, set this parameter to the value of
	// `nextPageToken` from the previous response.
	PageToken string `protobuf:"bytes,4,opt,name=page_token,json=pageToken,proto3" json:"page_token,omitempty"`
	// The maximum number of bases to return in a single page. If unspecified,
	// defaults to 200Kbp (kilo base pairs). The maximum value is 10Mbp (mega base
	// pairs).
	PageSize int32 `protobuf:"varint,5,opt,name=page_size,json=pageSize,proto3" json:"page_size,omitempty"`
	// contains filtered or unexported fields
}

func (*ListBasesRequest) Descriptor deprecated

func (*ListBasesRequest) Descriptor() ([]byte, []int)

Deprecated: Use ListBasesRequest.ProtoReflect.Descriptor instead.

func (*ListBasesRequest) GetEnd

func (x *ListBasesRequest) GetEnd() int64

func (*ListBasesRequest) GetPageSize

func (x *ListBasesRequest) GetPageSize() int32

func (*ListBasesRequest) GetPageToken

func (x *ListBasesRequest) GetPageToken() string

func (*ListBasesRequest) GetReferenceId

func (x *ListBasesRequest) GetReferenceId() string

func (*ListBasesRequest) GetStart

func (x *ListBasesRequest) GetStart() int64

func (*ListBasesRequest) ProtoMessage

func (*ListBasesRequest) ProtoMessage()

func (*ListBasesRequest) ProtoReflect

func (x *ListBasesRequest) ProtoReflect() protoreflect.Message

func (*ListBasesRequest) Reset

func (x *ListBasesRequest) Reset()

func (*ListBasesRequest) String

func (x *ListBasesRequest) String() string

type ListBasesResponse

type ListBasesResponse struct {

	// The offset position (0-based) of the given `sequence` from the
	// start of this `Reference`. This value will differ for each page
	// in a paginated request.
	Offset int64 `protobuf:"varint,1,opt,name=offset,proto3" json:"offset,omitempty"`
	// A substring of the bases that make up this reference.
	Sequence string `protobuf:"bytes,2,opt,name=sequence,proto3" json:"sequence,omitempty"`
	// The continuation token, which is used to page through large result sets.
	// Provide this value in a subsequent request to return the next page of
	// results. This field will be empty if there aren't any additional results.
	NextPageToken string `protobuf:"bytes,3,opt,name=next_page_token,json=nextPageToken,proto3" json:"next_page_token,omitempty"`
	// contains filtered or unexported fields
}

func (*ListBasesResponse) Descriptor deprecated

func (*ListBasesResponse) Descriptor() ([]byte, []int)

Deprecated: Use ListBasesResponse.ProtoReflect.Descriptor instead.

func (*ListBasesResponse) GetNextPageToken

func (x *ListBasesResponse) GetNextPageToken() string

func (*ListBasesResponse) GetOffset

func (x *ListBasesResponse) GetOffset() int64

func (*ListBasesResponse) GetSequence

func (x *ListBasesResponse) GetSequence() string

func (*ListBasesResponse) ProtoMessage

func (*ListBasesResponse) ProtoMessage()

func (*ListBasesResponse) ProtoReflect

func (x *ListBasesResponse) ProtoReflect() protoreflect.Message

func (*ListBasesResponse) Reset

func (x *ListBasesResponse) Reset()

func (*ListBasesResponse) String

func (x *ListBasesResponse) String() string

type ListCoverageBucketsRequest

type ListCoverageBucketsRequest struct {

	// Required. The ID of the read group set over which coverage is requested.
	ReadGroupSetId string `protobuf:"bytes,1,opt,name=read_group_set_id,json=readGroupSetId,proto3" json:"read_group_set_id,omitempty"`
	// The name of the reference to query, within the reference set associated
	// with this query. Optional.
	ReferenceName string `protobuf:"bytes,3,opt,name=reference_name,json=referenceName,proto3" json:"reference_name,omitempty"`
	// The start position of the range on the reference, 0-based inclusive. If
	// specified, `referenceName` must also be specified. Defaults to 0.
	Start int64 `protobuf:"varint,4,opt,name=start,proto3" json:"start,omitempty"`
	// The end position of the range on the reference, 0-based exclusive. If
	// specified, `referenceName` must also be specified. If unset or 0, defaults
	// to the length of the reference.
	End int64 `protobuf:"varint,5,opt,name=end,proto3" json:"end,omitempty"`
	// The desired width of each reported coverage bucket in base pairs. This
	// will be rounded down to the nearest precomputed bucket width; the value
	// of which is returned as `bucketWidth` in the response. Defaults
	// to infinity (each bucket spans an entire reference sequence) or the length
	// of the target range, if specified. The smallest precomputed
	// `bucketWidth` is currently 2048 base pairs; this is subject to
	// change.
	TargetBucketWidth int64 `protobuf:"varint,6,opt,name=target_bucket_width,json=targetBucketWidth,proto3" json:"target_bucket_width,omitempty"`
	// The continuation token, which is used to page through large result sets.
	// To get the next page of results, set this parameter to the value of
	// `nextPageToken` from the previous response.
	PageToken string `protobuf:"bytes,7,opt,name=page_token,json=pageToken,proto3" json:"page_token,omitempty"`
	// The maximum number of results to return in a single page. If unspecified,
	// defaults to 1024. The maximum value is 2048.
	PageSize int32 `protobuf:"varint,8,opt,name=page_size,json=pageSize,proto3" json:"page_size,omitempty"`
	// contains filtered or unexported fields
}

func (*ListCoverageBucketsRequest) Descriptor deprecated

func (*ListCoverageBucketsRequest) Descriptor() ([]byte, []int)

Deprecated: Use ListCoverageBucketsRequest.ProtoReflect.Descriptor instead.

func (*ListCoverageBucketsRequest) GetEnd

func (x *ListCoverageBucketsRequest) GetEnd() int64

func (*ListCoverageBucketsRequest) GetPageSize

func (x *ListCoverageBucketsRequest) GetPageSize() int32

func (*ListCoverageBucketsRequest) GetPageToken

func (x *ListCoverageBucketsRequest) GetPageToken() string

func (*ListCoverageBucketsRequest) GetReadGroupSetId

func (x *ListCoverageBucketsRequest) GetReadGroupSetId() string

func (*ListCoverageBucketsRequest) GetReferenceName

func (x *ListCoverageBucketsRequest) GetReferenceName() string

func (*ListCoverageBucketsRequest) GetStart

func (x *ListCoverageBucketsRequest) GetStart() int64

func (*ListCoverageBucketsRequest) GetTargetBucketWidth

func (x *ListCoverageBucketsRequest) GetTargetBucketWidth() int64

func (*ListCoverageBucketsRequest) ProtoMessage

func (*ListCoverageBucketsRequest) ProtoMessage()

func (*ListCoverageBucketsRequest) ProtoReflect

func (*ListCoverageBucketsRequest) Reset

func (x *ListCoverageBucketsRequest) Reset()

func (*ListCoverageBucketsRequest) String

func (x *ListCoverageBucketsRequest) String() string

type ListCoverageBucketsResponse

type ListCoverageBucketsResponse struct {

	// The length of each coverage bucket in base pairs. Note that buckets at the
	// end of a reference sequence may be shorter. This value is omitted if the
	// bucket width is infinity (the default behaviour, with no range or
	// `targetBucketWidth`).
	BucketWidth int64 `protobuf:"varint,1,opt,name=bucket_width,json=bucketWidth,proto3" json:"bucket_width,omitempty"`
	// The coverage buckets. The list of buckets is sparse; a bucket with 0
	// overlapping reads is not returned. A bucket never crosses more than one
	// reference sequence. Each bucket has width `bucketWidth`, unless
	// its end is the end of the reference sequence.
	CoverageBuckets []*CoverageBucket `protobuf:"bytes,2,rep,name=coverage_buckets,json=coverageBuckets,proto3" json:"coverage_buckets,omitempty"`
	// The continuation token, which is used to page through large result sets.
	// Provide this value in a subsequent request to return the next page of
	// results. This field will be empty if there aren't any additional results.
	NextPageToken string `protobuf:"bytes,3,opt,name=next_page_token,json=nextPageToken,proto3" json:"next_page_token,omitempty"`
	// contains filtered or unexported fields
}

func (*ListCoverageBucketsResponse) Descriptor deprecated

func (*ListCoverageBucketsResponse) Descriptor() ([]byte, []int)

Deprecated: Use ListCoverageBucketsResponse.ProtoReflect.Descriptor instead.

func (*ListCoverageBucketsResponse) GetBucketWidth

func (x *ListCoverageBucketsResponse) GetBucketWidth() int64

func (*ListCoverageBucketsResponse) GetCoverageBuckets

func (x *ListCoverageBucketsResponse) GetCoverageBuckets() []*CoverageBucket

func (*ListCoverageBucketsResponse) GetNextPageToken

func (x *ListCoverageBucketsResponse) GetNextPageToken() string

func (*ListCoverageBucketsResponse) ProtoMessage

func (*ListCoverageBucketsResponse) ProtoMessage()

func (*ListCoverageBucketsResponse) ProtoReflect

func (*ListCoverageBucketsResponse) Reset

func (x *ListCoverageBucketsResponse) Reset()

func (*ListCoverageBucketsResponse) String

func (x *ListCoverageBucketsResponse) String() string

type ListDatasetsRequest

type ListDatasetsRequest struct {

	// Required. The Google Cloud project ID to list datasets for.
	ProjectId string `protobuf:"bytes,1,opt,name=project_id,json=projectId,proto3" json:"project_id,omitempty"`
	// The maximum number of results to return in a single page. If unspecified,
	// defaults to 50. The maximum value is 1024.
	PageSize int32 `protobuf:"varint,2,opt,name=page_size,json=pageSize,proto3" json:"page_size,omitempty"`
	// The continuation token, which is used to page through large result sets.
	// To get the next page of results, set this parameter to the value of
	// `nextPageToken` from the previous response.
	PageToken string `protobuf:"bytes,3,opt,name=page_token,json=pageToken,proto3" json:"page_token,omitempty"`
	// contains filtered or unexported fields
}

The dataset list request.

func (*ListDatasetsRequest) Descriptor deprecated

func (*ListDatasetsRequest) Descriptor() ([]byte, []int)

Deprecated: Use ListDatasetsRequest.ProtoReflect.Descriptor instead.

func (*ListDatasetsRequest) GetPageSize

func (x *ListDatasetsRequest) GetPageSize() int32

func (*ListDatasetsRequest) GetPageToken

func (x *ListDatasetsRequest) GetPageToken() string

func (*ListDatasetsRequest) GetProjectId

func (x *ListDatasetsRequest) GetProjectId() string

func (*ListDatasetsRequest) ProtoMessage

func (*ListDatasetsRequest) ProtoMessage()

func (*ListDatasetsRequest) ProtoReflect

func (x *ListDatasetsRequest) ProtoReflect() protoreflect.Message

func (*ListDatasetsRequest) Reset

func (x *ListDatasetsRequest) Reset()

func (*ListDatasetsRequest) String

func (x *ListDatasetsRequest) String() string

type ListDatasetsResponse

type ListDatasetsResponse struct {

	// The list of matching Datasets.
	Datasets []*Dataset `protobuf:"bytes,1,rep,name=datasets,proto3" json:"datasets,omitempty"`
	// The continuation token, which is used to page through large result sets.
	// Provide this value in a subsequent request to return the next page of
	// results. This field will be empty if there aren't any additional results.
	NextPageToken string `protobuf:"bytes,2,opt,name=next_page_token,json=nextPageToken,proto3" json:"next_page_token,omitempty"`
	// contains filtered or unexported fields
}

The dataset list response.

func (*ListDatasetsResponse) Descriptor deprecated

func (*ListDatasetsResponse) Descriptor() ([]byte, []int)

Deprecated: Use ListDatasetsResponse.ProtoReflect.Descriptor instead.

func (*ListDatasetsResponse) GetDatasets

func (x *ListDatasetsResponse) GetDatasets() []*Dataset

func (*ListDatasetsResponse) GetNextPageToken

func (x *ListDatasetsResponse) GetNextPageToken() string

func (*ListDatasetsResponse) ProtoMessage

func (*ListDatasetsResponse) ProtoMessage()

func (*ListDatasetsResponse) ProtoReflect

func (x *ListDatasetsResponse) ProtoReflect() protoreflect.Message

func (*ListDatasetsResponse) Reset

func (x *ListDatasetsResponse) Reset()

func (*ListDatasetsResponse) String

func (x *ListDatasetsResponse) String() string

type MergeVariantsRequest

type MergeVariantsRequest struct {

	// The destination variant set.
	VariantSetId string `protobuf:"bytes,1,opt,name=variant_set_id,json=variantSetId,proto3" json:"variant_set_id,omitempty"`
	// The variants to be merged with existing variants.
	Variants []*Variant `protobuf:"bytes,2,rep,name=variants,proto3" json:"variants,omitempty"`
	// A mapping between info field keys and the InfoMergeOperations to
	// be performed on them.
	InfoMergeConfig map[string]InfoMergeOperation `` /* 240-byte string literal not displayed */
	// contains filtered or unexported fields
}

func (*MergeVariantsRequest) Descriptor deprecated

func (*MergeVariantsRequest) Descriptor() ([]byte, []int)

Deprecated: Use MergeVariantsRequest.ProtoReflect.Descriptor instead.

func (*MergeVariantsRequest) GetInfoMergeConfig

func (x *MergeVariantsRequest) GetInfoMergeConfig() map[string]InfoMergeOperation

func (*MergeVariantsRequest) GetVariantSetId

func (x *MergeVariantsRequest) GetVariantSetId() string

func (*MergeVariantsRequest) GetVariants

func (x *MergeVariantsRequest) GetVariants() []*Variant

func (*MergeVariantsRequest) ProtoMessage

func (*MergeVariantsRequest) ProtoMessage()

func (*MergeVariantsRequest) ProtoReflect

func (x *MergeVariantsRequest) ProtoReflect() protoreflect.Message

func (*MergeVariantsRequest) Reset

func (x *MergeVariantsRequest) Reset()

func (*MergeVariantsRequest) String

func (x *MergeVariantsRequest) String() string

type OperationEvent

type OperationEvent struct {

	// Optional time of when event started.
	StartTime *timestamppb.Timestamp `protobuf:"bytes,1,opt,name=start_time,json=startTime,proto3" json:"start_time,omitempty"`
	// Optional time of when event finished. An event can have a start time and no
	// finish time. If an event has a finish time, there must be a start time.
	EndTime *timestamppb.Timestamp `protobuf:"bytes,2,opt,name=end_time,json=endTime,proto3" json:"end_time,omitempty"`
	// Required description of event.
	Description string `protobuf:"bytes,3,opt,name=description,proto3" json:"description,omitempty"`
	// contains filtered or unexported fields
}

An event that occurred during an [Operation][google.longrunning.Operation].

func (*OperationEvent) Descriptor deprecated

func (*OperationEvent) Descriptor() ([]byte, []int)

Deprecated: Use OperationEvent.ProtoReflect.Descriptor instead.

func (*OperationEvent) GetDescription

func (x *OperationEvent) GetDescription() string

func (*OperationEvent) GetEndTime

func (x *OperationEvent) GetEndTime() *timestamppb.Timestamp

func (*OperationEvent) GetStartTime

func (x *OperationEvent) GetStartTime() *timestamppb.Timestamp

func (*OperationEvent) ProtoMessage

func (*OperationEvent) ProtoMessage()

func (*OperationEvent) ProtoReflect

func (x *OperationEvent) ProtoReflect() protoreflect.Message

func (*OperationEvent) Reset

func (x *OperationEvent) Reset()

func (*OperationEvent) String

func (x *OperationEvent) String() string

type OperationMetadata

type OperationMetadata struct {

	// The Google Cloud Project in which the job is scoped.
	ProjectId string `protobuf:"bytes,1,opt,name=project_id,json=projectId,proto3" json:"project_id,omitempty"`
	// The time at which the job was submitted to the Genomics service.
	CreateTime *timestamppb.Timestamp `protobuf:"bytes,2,opt,name=create_time,json=createTime,proto3" json:"create_time,omitempty"`
	// The time at which the job began to run.
	StartTime *timestamppb.Timestamp `protobuf:"bytes,3,opt,name=start_time,json=startTime,proto3" json:"start_time,omitempty"`
	// The time at which the job stopped running.
	EndTime *timestamppb.Timestamp `protobuf:"bytes,4,opt,name=end_time,json=endTime,proto3" json:"end_time,omitempty"`
	// The original request that started the operation. Note that this will be in
	// current version of the API. If the operation was started with v1beta2 API
	// and a GetOperation is performed on v1 API, a v1 request will be returned.
	Request *anypb.Any `protobuf:"bytes,5,opt,name=request,proto3" json:"request,omitempty"`
	// Optional event messages that were generated during the job's execution.
	// This also contains any warnings that were generated during import
	// or export.
	Events []*OperationEvent `protobuf:"bytes,6,rep,name=events,proto3" json:"events,omitempty"`
	// This field is deprecated. Use `labels` instead. Optionally provided by the
	// caller when submitting the request that creates the operation.
	ClientId string `protobuf:"bytes,7,opt,name=client_id,json=clientId,proto3" json:"client_id,omitempty"`
	// Runtime metadata on this Operation.
	RuntimeMetadata *anypb.Any `protobuf:"bytes,8,opt,name=runtime_metadata,json=runtimeMetadata,proto3" json:"runtime_metadata,omitempty"`
	// Optionally provided by the caller when submitting the request that creates
	// the operation.
	Labels map[string]string `` /* 153-byte string literal not displayed */
	// contains filtered or unexported fields
}

Metadata describing an [Operation][google.longrunning.Operation].

func (*OperationMetadata) Descriptor deprecated

func (*OperationMetadata) Descriptor() ([]byte, []int)

Deprecated: Use OperationMetadata.ProtoReflect.Descriptor instead.

func (*OperationMetadata) GetClientId

func (x *OperationMetadata) GetClientId() string

func (*OperationMetadata) GetCreateTime

func (x *OperationMetadata) GetCreateTime() *timestamppb.Timestamp

func (*OperationMetadata) GetEndTime

func (x *OperationMetadata) GetEndTime() *timestamppb.Timestamp

func (*OperationMetadata) GetEvents

func (x *OperationMetadata) GetEvents() []*OperationEvent

func (*OperationMetadata) GetLabels

func (x *OperationMetadata) GetLabels() map[string]string

func (*OperationMetadata) GetProjectId

func (x *OperationMetadata) GetProjectId() string

func (*OperationMetadata) GetRequest

func (x *OperationMetadata) GetRequest() *anypb.Any

func (*OperationMetadata) GetRuntimeMetadata

func (x *OperationMetadata) GetRuntimeMetadata() *anypb.Any

func (*OperationMetadata) GetStartTime

func (x *OperationMetadata) GetStartTime() *timestamppb.Timestamp

func (*OperationMetadata) ProtoMessage

func (*OperationMetadata) ProtoMessage()

func (*OperationMetadata) ProtoReflect

func (x *OperationMetadata) ProtoReflect() protoreflect.Message

func (*OperationMetadata) Reset

func (x *OperationMetadata) Reset()

func (*OperationMetadata) String

func (x *OperationMetadata) String() string

type Position

type Position struct {

	// The name of the reference in whatever reference set is being used.
	ReferenceName string `protobuf:"bytes,1,opt,name=reference_name,json=referenceName,proto3" json:"reference_name,omitempty"`
	// The 0-based offset from the start of the forward strand for that reference.
	Position int64 `protobuf:"varint,2,opt,name=position,proto3" json:"position,omitempty"`
	// Whether this position is on the reverse strand, as opposed to the forward
	// strand.
	ReverseStrand bool `protobuf:"varint,3,opt,name=reverse_strand,json=reverseStrand,proto3" json:"reverse_strand,omitempty"`
	// contains filtered or unexported fields
}

An abstraction for referring to a genomic position, in relation to some already known reference. For now, represents a genomic position as a reference name, a base number on that reference (0-based), and a determination of forward or reverse strand.

func (*Position) Descriptor deprecated

func (*Position) Descriptor() ([]byte, []int)

Deprecated: Use Position.ProtoReflect.Descriptor instead.

func (*Position) GetPosition

func (x *Position) GetPosition() int64

func (*Position) GetReferenceName

func (x *Position) GetReferenceName() string

func (*Position) GetReverseStrand

func (x *Position) GetReverseStrand() bool

func (*Position) ProtoMessage

func (*Position) ProtoMessage()

func (*Position) ProtoReflect

func (x *Position) ProtoReflect() protoreflect.Message

func (*Position) Reset

func (x *Position) Reset()

func (*Position) String

func (x *Position) String() string

type Range

type Range struct {

	// The reference sequence name, for example `chr1`,
	// `1`, or `chrX`.
	ReferenceName string `protobuf:"bytes,1,opt,name=reference_name,json=referenceName,proto3" json:"reference_name,omitempty"`
	// The start position of the range on the reference, 0-based inclusive.
	Start int64 `protobuf:"varint,2,opt,name=start,proto3" json:"start,omitempty"`
	// The end position of the range on the reference, 0-based exclusive.
	End int64 `protobuf:"varint,3,opt,name=end,proto3" json:"end,omitempty"`
	// contains filtered or unexported fields
}

A 0-based half-open genomic coordinate range for search requests.

func (*Range) Descriptor deprecated

func (*Range) Descriptor() ([]byte, []int)

Deprecated: Use Range.ProtoReflect.Descriptor instead.

func (*Range) GetEnd

func (x *Range) GetEnd() int64

func (*Range) GetReferenceName

func (x *Range) GetReferenceName() string

func (*Range) GetStart

func (x *Range) GetStart() int64

func (*Range) ProtoMessage

func (*Range) ProtoMessage()

func (*Range) ProtoReflect

func (x *Range) ProtoReflect() protoreflect.Message

func (*Range) Reset

func (x *Range) Reset()

func (*Range) String

func (x *Range) String() string

type Read

type Read struct {

	// The server-generated read ID, unique across all reads. This is different
	// from the `fragmentName`.
	Id string `protobuf:"bytes,1,opt,name=id,proto3" json:"id,omitempty"`
	// The ID of the read group this read belongs to. A read belongs to exactly
	// one read group. This is a server-generated ID which is distinct from SAM's
	// RG tag (for that value, see
	// [ReadGroup.name][google.genomics.v1.ReadGroup.name]).
	ReadGroupId string `protobuf:"bytes,2,opt,name=read_group_id,json=readGroupId,proto3" json:"read_group_id,omitempty"`
	// The ID of the read group set this read belongs to. A read belongs to
	// exactly one read group set.
	ReadGroupSetId string `protobuf:"bytes,3,opt,name=read_group_set_id,json=readGroupSetId,proto3" json:"read_group_set_id,omitempty"`
	// The fragment name. Equivalent to QNAME (query template name) in SAM.
	FragmentName string `protobuf:"bytes,4,opt,name=fragment_name,json=fragmentName,proto3" json:"fragment_name,omitempty"`
	// The orientation and the distance between reads from the fragment are
	// consistent with the sequencing protocol (SAM flag 0x2).
	ProperPlacement bool `protobuf:"varint,5,opt,name=proper_placement,json=properPlacement,proto3" json:"proper_placement,omitempty"`
	// The fragment is a PCR or optical duplicate (SAM flag 0x400).
	DuplicateFragment bool `protobuf:"varint,6,opt,name=duplicate_fragment,json=duplicateFragment,proto3" json:"duplicate_fragment,omitempty"`
	// The observed length of the fragment, equivalent to TLEN in SAM.
	FragmentLength int32 `protobuf:"varint,7,opt,name=fragment_length,json=fragmentLength,proto3" json:"fragment_length,omitempty"`
	// The read number in sequencing. 0-based and less than numberReads. This
	// field replaces SAM flag 0x40 and 0x80.
	ReadNumber int32 `protobuf:"varint,8,opt,name=read_number,json=readNumber,proto3" json:"read_number,omitempty"`
	// The number of reads in the fragment (extension to SAM flag 0x1).
	NumberReads int32 `protobuf:"varint,9,opt,name=number_reads,json=numberReads,proto3" json:"number_reads,omitempty"`
	// Whether this read did not pass filters, such as platform or vendor quality
	// controls (SAM flag 0x200).
	FailedVendorQualityChecks bool `` /* 142-byte string literal not displayed */
	// The linear alignment for this alignment record. This field is null for
	// unmapped reads.
	Alignment *LinearAlignment `protobuf:"bytes,11,opt,name=alignment,proto3" json:"alignment,omitempty"`
	// Whether this alignment is secondary. Equivalent to SAM flag 0x100.
	// A secondary alignment represents an alternative to the primary alignment
	// for this read. Aligners may return secondary alignments if a read can map
	// ambiguously to multiple coordinates in the genome. By convention, each read
	// has one and only one alignment where both `secondaryAlignment`
	// and `supplementaryAlignment` are false.
	SecondaryAlignment bool `protobuf:"varint,12,opt,name=secondary_alignment,json=secondaryAlignment,proto3" json:"secondary_alignment,omitempty"`
	// Whether this alignment is supplementary. Equivalent to SAM flag 0x800.
	// Supplementary alignments are used in the representation of a chimeric
	// alignment. In a chimeric alignment, a read is split into multiple
	// linear alignments that map to different reference contigs. The first
	// linear alignment in the read will be designated as the representative
	// alignment; the remaining linear alignments will be designated as
	// supplementary alignments. These alignments may have different mapping
	// quality scores. In each linear alignment in a chimeric alignment, the read
	// will be hard clipped. The `alignedSequence` and
	// `alignedQuality` fields in the alignment record will only
	// represent the bases for its respective linear alignment.
	SupplementaryAlignment bool `` /* 129-byte string literal not displayed */
	// The bases of the read sequence contained in this alignment record,
	// **without CIGAR operations applied** (equivalent to SEQ in SAM).
	// `alignedSequence` and `alignedQuality` may be
	// shorter than the full read sequence and quality. This will occur if the
	// alignment is part of a chimeric alignment, or if the read was trimmed. When
	// this occurs, the CIGAR for this read will begin/end with a hard clip
	// operator that will indicate the length of the excised sequence.
	AlignedSequence string `protobuf:"bytes,14,opt,name=aligned_sequence,json=alignedSequence,proto3" json:"aligned_sequence,omitempty"`
	// The quality of the read sequence contained in this alignment record
	// (equivalent to QUAL in SAM).
	// `alignedSequence` and `alignedQuality` may be shorter than the full read
	// sequence and quality. This will occur if the alignment is part of a
	// chimeric alignment, or if the read was trimmed. When this occurs, the CIGAR
	// for this read will begin/end with a hard clip operator that will indicate
	// the length of the excised sequence.
	AlignedQuality []int32 `protobuf:"varint,15,rep,packed,name=aligned_quality,json=alignedQuality,proto3" json:"aligned_quality,omitempty"`
	// The mapping of the primary alignment of the
	// `(readNumber+1)%numberReads` read in the fragment. It replaces
	// mate position and mate strand in SAM.
	NextMatePosition *Position `protobuf:"bytes,16,opt,name=next_mate_position,json=nextMatePosition,proto3" json:"next_mate_position,omitempty"`
	// A map of additional read alignment information. This must be of the form
	// map<string, string[]> (string key mapping to a list of string values).
	Info map[string]*structpb.ListValue `` /* 150-byte string literal not displayed */
	// contains filtered or unexported fields
}

A read alignment describes a linear alignment of a string of DNA to a [reference sequence][google.genomics.v1.Reference], in addition to metadata about the fragment (the molecule of DNA sequenced) and the read (the bases which were read by the sequencer). A read is equivalent to a line in a SAM file. A read belongs to exactly one read group and exactly one [read group set][google.genomics.v1.ReadGroupSet].

For more genomics resource definitions, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)

### Reverse-stranded reads

Mapped reads (reads having a non-null `alignment`) can be aligned to either the forward or the reverse strand of their associated reference. Strandedness of a mapped read is encoded by `alignment.position.reverseStrand`.

If we consider the reference to be a forward-stranded coordinate space of `[0, reference.length)` with `0` as the left-most position and `reference.length` as the right-most position, reads are always aligned left to right. That is, `alignment.position.position` always refers to the left-most reference coordinate and `alignment.cigar` describes the alignment of this read to the reference from left to right. All per-base fields such as `alignedSequence` and `alignedQuality` share this same left-to-right orientation; this is true of reads which are aligned to either strand. For reverse-stranded reads, this means that `alignedSequence` is the reverse complement of the bases that were originally reported by the sequencing machine.

### Generating a reference-aligned sequence string

When interacting with mapped reads, it's often useful to produce a string representing the local alignment of the read to reference. The following pseudocode demonstrates one way of doing this:

out = ""
offset = 0
for c in read.alignment.cigar {
  switch c.operation {
  case "ALIGNMENT_MATCH", "SEQUENCE_MATCH", "SEQUENCE_MISMATCH":
    out += read.alignedSequence[offset:offset+c.operationLength]
    offset += c.operationLength
    break
  case "CLIP_SOFT", "INSERT":
    offset += c.operationLength
    break
  case "PAD":
    out += repeat("*", c.operationLength)
    break
  case "DELETE":
    out += repeat("-", c.operationLength)
    break
  case "SKIP":
    out += repeat(" ", c.operationLength)
    break
  case "CLIP_HARD":
    break
  }
}
return out

### Converting to SAM's CIGAR string

The following pseudocode generates a SAM CIGAR string from the `cigar` field. Note that this is a lossy conversion (`cigar.referenceSequence` is lost).

cigarMap = {
  "ALIGNMENT_MATCH": "M",
  "INSERT": "I",
  "DELETE": "D",
  "SKIP": "N",
  "CLIP_SOFT": "S",
  "CLIP_HARD": "H",
  "PAD": "P",
  "SEQUENCE_MATCH": "=",
  "SEQUENCE_MISMATCH": "X",
}
cigarStr = ""
for c in read.alignment.cigar {
  cigarStr += c.operationLength + cigarMap[c.operation]
}
return cigarStr

func (*Read) Descriptor deprecated

func (*Read) Descriptor() ([]byte, []int)

Deprecated: Use Read.ProtoReflect.Descriptor instead.

func (*Read) GetAlignedQuality

func (x *Read) GetAlignedQuality() []int32

func (*Read) GetAlignedSequence

func (x *Read) GetAlignedSequence() string

func (*Read) GetAlignment

func (x *Read) GetAlignment() *LinearAlignment

func (*Read) GetDuplicateFragment

func (x *Read) GetDuplicateFragment() bool

func (*Read) GetFailedVendorQualityChecks

func (x *Read) GetFailedVendorQualityChecks() bool

func (*Read) GetFragmentLength

func (x *Read) GetFragmentLength() int32

func (*Read) GetFragmentName

func (x *Read) GetFragmentName() string

func (*Read) GetId

func (x *Read) GetId() string

func (*Read) GetInfo

func (x *Read) GetInfo() map[string]*structpb.ListValue

func (*Read) GetNextMatePosition

func (x *Read) GetNextMatePosition() *Position

func (*Read) GetNumberReads

func (x *Read) GetNumberReads() int32

func (*Read) GetProperPlacement

func (x *Read) GetProperPlacement() bool

func (*Read) GetReadGroupId

func (x *Read) GetReadGroupId() string

func (*Read) GetReadGroupSetId

func (x *Read) GetReadGroupSetId() string

func (*Read) GetReadNumber

func (x *Read) GetReadNumber() int32

func (*Read) GetSecondaryAlignment

func (x *Read) GetSecondaryAlignment() bool

func (*Read) GetSupplementaryAlignment

func (x *Read) GetSupplementaryAlignment() bool

func (*Read) ProtoMessage

func (*Read) ProtoMessage()

func (*Read) ProtoReflect

func (x *Read) ProtoReflect() protoreflect.Message

func (*Read) Reset

func (x *Read) Reset()

func (*Read) String

func (x *Read) String() string

type ReadGroup

type ReadGroup struct {

	// The server-generated read group ID, unique for all read groups.
	// Note: This is different than the @RG ID field in the SAM spec. For that
	// value, see [name][google.genomics.v1.ReadGroup.name].
	Id string `protobuf:"bytes,1,opt,name=id,proto3" json:"id,omitempty"`
	// The dataset to which this read group belongs.
	DatasetId string `protobuf:"bytes,2,opt,name=dataset_id,json=datasetId,proto3" json:"dataset_id,omitempty"`
	// The read group name. This corresponds to the @RG ID field in the SAM spec.
	Name string `protobuf:"bytes,3,opt,name=name,proto3" json:"name,omitempty"`
	// A free-form text description of this read group.
	Description string `protobuf:"bytes,4,opt,name=description,proto3" json:"description,omitempty"`
	// A client-supplied sample identifier for the reads in this read group.
	SampleId string `protobuf:"bytes,5,opt,name=sample_id,json=sampleId,proto3" json:"sample_id,omitempty"`
	// The experiment used to generate this read group.
	Experiment *ReadGroup_Experiment `protobuf:"bytes,6,opt,name=experiment,proto3" json:"experiment,omitempty"`
	// The predicted insert size of this read group. The insert size is the length
	// the sequenced DNA fragment from end-to-end, not including the adapters.
	PredictedInsertSize int32 `protobuf:"varint,7,opt,name=predicted_insert_size,json=predictedInsertSize,proto3" json:"predicted_insert_size,omitempty"`
	// The programs used to generate this read group. Programs are always
	// identical for all read groups within a read group set. For this reason,
	// only the first read group in a returned set will have this field
	// populated.
	Programs []*ReadGroup_Program `protobuf:"bytes,10,rep,name=programs,proto3" json:"programs,omitempty"`
	// The reference set the reads in this read group are aligned to.
	ReferenceSetId string `protobuf:"bytes,11,opt,name=reference_set_id,json=referenceSetId,proto3" json:"reference_set_id,omitempty"`
	// A map of additional read group information. This must be of the form
	// map<string, string[]> (string key mapping to a list of string values).
	Info map[string]*structpb.ListValue `` /* 150-byte string literal not displayed */
	// contains filtered or unexported fields
}

A read group is all the data that's processed the same way by the sequencer.

func (*ReadGroup) Descriptor deprecated

func (*ReadGroup) Descriptor() ([]byte, []int)

Deprecated: Use ReadGroup.ProtoReflect.Descriptor instead.

func (*ReadGroup) GetDatasetId

func (x *ReadGroup) GetDatasetId() string

func (*ReadGroup) GetDescription

func (x *ReadGroup) GetDescription() string

func (*ReadGroup) GetExperiment

func (x *ReadGroup) GetExperiment() *ReadGroup_Experiment

func (*ReadGroup) GetId

func (x *ReadGroup) GetId() string

func (*ReadGroup) GetInfo

func (x *ReadGroup) GetInfo() map[string]*structpb.ListValue

func (*ReadGroup) GetName

func (x *ReadGroup) GetName() string

func (*ReadGroup) GetPredictedInsertSize

func (x *ReadGroup) GetPredictedInsertSize() int32

func (*ReadGroup) GetPrograms

func (x *ReadGroup) GetPrograms() []*ReadGroup_Program

func (*ReadGroup) GetReferenceSetId

func (x *ReadGroup) GetReferenceSetId() string

func (*ReadGroup) GetSampleId

func (x *ReadGroup) GetSampleId() string

func (*ReadGroup) ProtoMessage

func (*ReadGroup) ProtoMessage()

func (*ReadGroup) ProtoReflect

func (x *ReadGroup) ProtoReflect() protoreflect.Message

func (*ReadGroup) Reset

func (x *ReadGroup) Reset()

func (*ReadGroup) String

func (x *ReadGroup) String() string

type ReadGroupSet

type ReadGroupSet struct {

	// The server-generated read group set ID, unique for all read group sets.
	Id string `protobuf:"bytes,1,opt,name=id,proto3" json:"id,omitempty"`
	// The dataset to which this read group set belongs.
	DatasetId string `protobuf:"bytes,2,opt,name=dataset_id,json=datasetId,proto3" json:"dataset_id,omitempty"`
	// The reference set to which the reads in this read group set are aligned.
	ReferenceSetId string `protobuf:"bytes,3,opt,name=reference_set_id,json=referenceSetId,proto3" json:"reference_set_id,omitempty"`
	// The read group set name. By default this will be initialized to the sample
	// name of the sequenced data contained in this set.
	Name string `protobuf:"bytes,4,opt,name=name,proto3" json:"name,omitempty"`
	// The filename of the original source file for this read group set, if any.
	Filename string `protobuf:"bytes,5,opt,name=filename,proto3" json:"filename,omitempty"`
	// The read groups in this set. There are typically 1-10 read groups in a read
	// group set.
	ReadGroups []*ReadGroup `protobuf:"bytes,6,rep,name=read_groups,json=readGroups,proto3" json:"read_groups,omitempty"`
	// A map of additional read group set information.
	Info map[string]*structpb.ListValue `` /* 149-byte string literal not displayed */
	// contains filtered or unexported fields
}

A read group set is a logical collection of read groups, which are collections of reads produced by a sequencer. A read group set typically models reads corresponding to one sample, sequenced one way, and aligned one way.

* A read group set belongs to one dataset. * A read group belongs to one read group set. * A read belongs to one read group.

For more genomics resource definitions, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)

func (*ReadGroupSet) Descriptor deprecated

func (*ReadGroupSet) Descriptor() ([]byte, []int)

Deprecated: Use ReadGroupSet.ProtoReflect.Descriptor instead.

func (*ReadGroupSet) GetDatasetId

func (x *ReadGroupSet) GetDatasetId() string

func (*ReadGroupSet) GetFilename

func (x *ReadGroupSet) GetFilename() string

func (*ReadGroupSet) GetId

func (x *ReadGroupSet) GetId() string

func (*ReadGroupSet) GetInfo

func (x *ReadGroupSet) GetInfo() map[string]*structpb.ListValue

func (*ReadGroupSet) GetName

func (x *ReadGroupSet) GetName() string

func (*ReadGroupSet) GetReadGroups

func (x *ReadGroupSet) GetReadGroups() []*ReadGroup

func (*ReadGroupSet) GetReferenceSetId

func (x *ReadGroupSet) GetReferenceSetId() string

func (*ReadGroupSet) ProtoMessage

func (*ReadGroupSet) ProtoMessage()

func (*ReadGroupSet) ProtoReflect

func (x *ReadGroupSet) ProtoReflect() protoreflect.Message

func (*ReadGroupSet) Reset

func (x *ReadGroupSet) Reset()

func (*ReadGroupSet) String

func (x *ReadGroupSet) String() string

type ReadGroup_Experiment

type ReadGroup_Experiment struct {

	// A client-supplied library identifier; a library is a collection of DNA
	// fragments which have been prepared for sequencing from a sample. This
	// field is important for quality control as error or bias can be introduced
	// during sample preparation.
	LibraryId string `protobuf:"bytes,1,opt,name=library_id,json=libraryId,proto3" json:"library_id,omitempty"`
	// The platform unit used as part of this experiment, for example
	// flowcell-barcode.lane for Illumina or slide for SOLiD. Corresponds to the
	// @RG PU field in the SAM spec.
	PlatformUnit string `protobuf:"bytes,2,opt,name=platform_unit,json=platformUnit,proto3" json:"platform_unit,omitempty"`
	// The sequencing center used as part of this experiment.
	SequencingCenter string `protobuf:"bytes,3,opt,name=sequencing_center,json=sequencingCenter,proto3" json:"sequencing_center,omitempty"`
	// The instrument model used as part of this experiment. This maps to
	// sequencing technology in the SAM spec.
	InstrumentModel string `protobuf:"bytes,4,opt,name=instrument_model,json=instrumentModel,proto3" json:"instrument_model,omitempty"`
	// contains filtered or unexported fields
}

func (*ReadGroup_Experiment) Descriptor deprecated

func (*ReadGroup_Experiment) Descriptor() ([]byte, []int)

Deprecated: Use ReadGroup_Experiment.ProtoReflect.Descriptor instead.

func (*ReadGroup_Experiment) GetInstrumentModel

func (x *ReadGroup_Experiment) GetInstrumentModel() string

func (*ReadGroup_Experiment) GetLibraryId

func (x *ReadGroup_Experiment) GetLibraryId() string

func (*ReadGroup_Experiment) GetPlatformUnit

func (x *ReadGroup_Experiment) GetPlatformUnit() string

func (*ReadGroup_Experiment) GetSequencingCenter

func (x *ReadGroup_Experiment) GetSequencingCenter() string

func (*ReadGroup_Experiment) ProtoMessage

func (*ReadGroup_Experiment) ProtoMessage()

func (*ReadGroup_Experiment) ProtoReflect

func (x *ReadGroup_Experiment) ProtoReflect() protoreflect.Message

func (*ReadGroup_Experiment) Reset

func (x *ReadGroup_Experiment) Reset()

func (*ReadGroup_Experiment) String

func (x *ReadGroup_Experiment) String() string

type ReadGroup_Program

type ReadGroup_Program struct {

	// The command line used to run this program.
	CommandLine string `protobuf:"bytes,1,opt,name=command_line,json=commandLine,proto3" json:"command_line,omitempty"`
	// The user specified locally unique ID of the program. Used along with
	// `prevProgramId` to define an ordering between programs.
	Id string `protobuf:"bytes,2,opt,name=id,proto3" json:"id,omitempty"`
	// The display name of the program. This is typically the colloquial name of
	// the tool used, for example 'bwa' or 'picard'.
	Name string `protobuf:"bytes,3,opt,name=name,proto3" json:"name,omitempty"`
	// The ID of the program run before this one.
	PrevProgramId string `protobuf:"bytes,4,opt,name=prev_program_id,json=prevProgramId,proto3" json:"prev_program_id,omitempty"`
	// The version of the program run.
	Version string `protobuf:"bytes,5,opt,name=version,proto3" json:"version,omitempty"`
	// contains filtered or unexported fields
}

func (*ReadGroup_Program) Descriptor deprecated

func (*ReadGroup_Program) Descriptor() ([]byte, []int)

Deprecated: Use ReadGroup_Program.ProtoReflect.Descriptor instead.

func (*ReadGroup_Program) GetCommandLine

func (x *ReadGroup_Program) GetCommandLine() string

func (*ReadGroup_Program) GetId

func (x *ReadGroup_Program) GetId() string

func (*ReadGroup_Program) GetName

func (x *ReadGroup_Program) GetName() string

func (*ReadGroup_Program) GetPrevProgramId

func (x *ReadGroup_Program) GetPrevProgramId() string

func (*ReadGroup_Program) GetVersion

func (x *ReadGroup_Program) GetVersion() string

func (*ReadGroup_Program) ProtoMessage

func (*ReadGroup_Program) ProtoMessage()

func (*ReadGroup_Program) ProtoReflect

func (x *ReadGroup_Program) ProtoReflect() protoreflect.Message

func (*ReadGroup_Program) Reset

func (x *ReadGroup_Program) Reset()

func (*ReadGroup_Program) String

func (x *ReadGroup_Program) String() string

type ReadServiceV1Client

type ReadServiceV1Client interface {
	// Creates read group sets by asynchronously importing the provided
	// information.
	//
	// For the definitions of read group sets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	//
	// The caller must have WRITE permissions to the dataset.
	//
	// ## Notes on [BAM](https://samtools.github.io/hts-specs/SAMv1.pdf) import
	//
	// - Tags will be converted to strings - tag types are not preserved
	// - Comments (`@CO`) in the input file header will not be preserved
	// - Original header order of references (`@SQ`) will not be preserved
	// - Any reverse stranded unmapped reads will be reverse complemented, and
	// their qualities (also the "BQ" and "OQ" tags, if any) will be reversed
	// - Unmapped reads will be stripped of positional information (reference name
	// and position)
	ImportReadGroupSets(ctx context.Context, in *ImportReadGroupSetsRequest, opts ...grpc.CallOption) (*longrunning.Operation, error)
	// Exports a read group set to a BAM file in Google Cloud Storage.
	//
	// For the definitions of read group sets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	//
	// Note that currently there may be some differences between exported BAM
	// files and the original BAM file at the time of import. See
	// [ImportReadGroupSets][google.genomics.v1.ReadServiceV1.ImportReadGroupSets]
	// for caveats.
	ExportReadGroupSet(ctx context.Context, in *ExportReadGroupSetRequest, opts ...grpc.CallOption) (*longrunning.Operation, error)
	// Searches for read group sets matching the criteria.
	//
	// For the definitions of read group sets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	//
	// Implements
	// [GlobalAllianceApi.searchReadGroupSets](https://github.com/ga4gh/schemas/blob/v0.5.1/src/main/resources/avro/readmethods.avdl#L135).
	SearchReadGroupSets(ctx context.Context, in *SearchReadGroupSetsRequest, opts ...grpc.CallOption) (*SearchReadGroupSetsResponse, error)
	// Updates a read group set.
	//
	// For the definitions of read group sets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	//
	// This method supports patch semantics.
	UpdateReadGroupSet(ctx context.Context, in *UpdateReadGroupSetRequest, opts ...grpc.CallOption) (*ReadGroupSet, error)
	// Deletes a read group set.
	//
	// For the definitions of read group sets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	DeleteReadGroupSet(ctx context.Context, in *DeleteReadGroupSetRequest, opts ...grpc.CallOption) (*emptypb.Empty, error)
	// Gets a read group set by ID.
	//
	// For the definitions of read group sets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	GetReadGroupSet(ctx context.Context, in *GetReadGroupSetRequest, opts ...grpc.CallOption) (*ReadGroupSet, error)
	// Lists fixed width coverage buckets for a read group set, each of which
	// correspond to a range of a reference sequence. Each bucket summarizes
	// coverage information across its corresponding genomic range.
	//
	// For the definitions of read group sets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	//
	// Coverage is defined as the number of reads which are aligned to a given
	// base in the reference sequence. Coverage buckets are available at several
	// precomputed bucket widths, enabling retrieval of various coverage 'zoom
	// levels'. The caller must have READ permissions for the target read group
	// set.
	ListCoverageBuckets(ctx context.Context, in *ListCoverageBucketsRequest, opts ...grpc.CallOption) (*ListCoverageBucketsResponse, error)
	// Gets a list of reads for one or more read group sets.
	//
	// For the definitions of read group sets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	//
	// Reads search operates over a genomic coordinate space of reference sequence
	// & position defined over the reference sequences to which the requested
	// read group sets are aligned.
	//
	// If a target positional range is specified, search returns all reads whose
	// alignment to the reference genome overlap the range. A query which
	// specifies only read group set IDs yields all reads in those read group
	// sets, including unmapped reads.
	//
	// All reads returned (including reads on subsequent pages) are ordered by
	// genomic coordinate (by reference sequence, then position). Reads with
	// equivalent genomic coordinates are returned in an unspecified order. This
	// order is consistent, such that two queries for the same content (regardless
	// of page size) yield reads in the same order across their respective streams
	// of paginated responses.
	//
	// Implements
	// [GlobalAllianceApi.searchReads](https://github.com/ga4gh/schemas/blob/v0.5.1/src/main/resources/avro/readmethods.avdl#L85).
	SearchReads(ctx context.Context, in *SearchReadsRequest, opts ...grpc.CallOption) (*SearchReadsResponse, error)
}

ReadServiceV1Client is the client API for ReadServiceV1 service.

For semantics around ctx use and closing/ending streaming RPCs, please refer to https://godoc.org/google.golang.org/grpc#ClientConn.NewStream.

type ReadServiceV1Server

type ReadServiceV1Server interface {
	// Creates read group sets by asynchronously importing the provided
	// information.
	//
	// For the definitions of read group sets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	//
	// The caller must have WRITE permissions to the dataset.
	//
	// ## Notes on [BAM](https://samtools.github.io/hts-specs/SAMv1.pdf) import
	//
	// - Tags will be converted to strings - tag types are not preserved
	// - Comments (`@CO`) in the input file header will not be preserved
	// - Original header order of references (`@SQ`) will not be preserved
	// - Any reverse stranded unmapped reads will be reverse complemented, and
	// their qualities (also the "BQ" and "OQ" tags, if any) will be reversed
	// - Unmapped reads will be stripped of positional information (reference name
	// and position)
	ImportReadGroupSets(context.Context, *ImportReadGroupSetsRequest) (*longrunning.Operation, error)
	// Exports a read group set to a BAM file in Google Cloud Storage.
	//
	// For the definitions of read group sets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	//
	// Note that currently there may be some differences between exported BAM
	// files and the original BAM file at the time of import. See
	// [ImportReadGroupSets][google.genomics.v1.ReadServiceV1.ImportReadGroupSets]
	// for caveats.
	ExportReadGroupSet(context.Context, *ExportReadGroupSetRequest) (*longrunning.Operation, error)
	// Searches for read group sets matching the criteria.
	//
	// For the definitions of read group sets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	//
	// Implements
	// [GlobalAllianceApi.searchReadGroupSets](https://github.com/ga4gh/schemas/blob/v0.5.1/src/main/resources/avro/readmethods.avdl#L135).
	SearchReadGroupSets(context.Context, *SearchReadGroupSetsRequest) (*SearchReadGroupSetsResponse, error)
	// Updates a read group set.
	//
	// For the definitions of read group sets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	//
	// This method supports patch semantics.
	UpdateReadGroupSet(context.Context, *UpdateReadGroupSetRequest) (*ReadGroupSet, error)
	// Deletes a read group set.
	//
	// For the definitions of read group sets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	DeleteReadGroupSet(context.Context, *DeleteReadGroupSetRequest) (*emptypb.Empty, error)
	// Gets a read group set by ID.
	//
	// For the definitions of read group sets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	GetReadGroupSet(context.Context, *GetReadGroupSetRequest) (*ReadGroupSet, error)
	// Lists fixed width coverage buckets for a read group set, each of which
	// correspond to a range of a reference sequence. Each bucket summarizes
	// coverage information across its corresponding genomic range.
	//
	// For the definitions of read group sets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	//
	// Coverage is defined as the number of reads which are aligned to a given
	// base in the reference sequence. Coverage buckets are available at several
	// precomputed bucket widths, enabling retrieval of various coverage 'zoom
	// levels'. The caller must have READ permissions for the target read group
	// set.
	ListCoverageBuckets(context.Context, *ListCoverageBucketsRequest) (*ListCoverageBucketsResponse, error)
	// Gets a list of reads for one or more read group sets.
	//
	// For the definitions of read group sets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	//
	// Reads search operates over a genomic coordinate space of reference sequence
	// & position defined over the reference sequences to which the requested
	// read group sets are aligned.
	//
	// If a target positional range is specified, search returns all reads whose
	// alignment to the reference genome overlap the range. A query which
	// specifies only read group set IDs yields all reads in those read group
	// sets, including unmapped reads.
	//
	// All reads returned (including reads on subsequent pages) are ordered by
	// genomic coordinate (by reference sequence, then position). Reads with
	// equivalent genomic coordinates are returned in an unspecified order. This
	// order is consistent, such that two queries for the same content (regardless
	// of page size) yield reads in the same order across their respective streams
	// of paginated responses.
	//
	// Implements
	// [GlobalAllianceApi.searchReads](https://github.com/ga4gh/schemas/blob/v0.5.1/src/main/resources/avro/readmethods.avdl#L85).
	SearchReads(context.Context, *SearchReadsRequest) (*SearchReadsResponse, error)
}

ReadServiceV1Server is the server API for ReadServiceV1 service.

type Reference

type Reference struct {

	// The server-generated reference ID, unique across all references.
	Id string `protobuf:"bytes,1,opt,name=id,proto3" json:"id,omitempty"`
	// The length of this reference's sequence.
	Length int64 `protobuf:"varint,2,opt,name=length,proto3" json:"length,omitempty"`
	// MD5 of the upper-case sequence excluding all whitespace characters (this
	// is equivalent to SQ:M5 in SAM). This value is represented in lower case
	// hexadecimal format.
	Md5Checksum string `protobuf:"bytes,3,opt,name=md5checksum,proto3" json:"md5checksum,omitempty"`
	// The name of this reference, for example `22`.
	Name string `protobuf:"bytes,4,opt,name=name,proto3" json:"name,omitempty"`
	// The URI from which the sequence was obtained. Typically specifies a FASTA
	// format file.
	SourceUri string `protobuf:"bytes,5,opt,name=source_uri,json=sourceUri,proto3" json:"source_uri,omitempty"`
	// All known corresponding accession IDs in INSDC (GenBank/ENA/DDBJ) ideally
	// with a version number, for example `GCF_000001405.26`.
	SourceAccessions []string `protobuf:"bytes,6,rep,name=source_accessions,json=sourceAccessions,proto3" json:"source_accessions,omitempty"`
	// ID from http://www.ncbi.nlm.nih.gov/taxonomy. For example, 9606 for human.
	NcbiTaxonId int32 `protobuf:"varint,7,opt,name=ncbi_taxon_id,json=ncbiTaxonId,proto3" json:"ncbi_taxon_id,omitempty"`
	// contains filtered or unexported fields
}

A reference is a canonical assembled DNA sequence, intended to act as a reference coordinate space for other genomic annotations. A single reference might represent the human chromosome 1 or mitochandrial DNA, for instance. A reference belongs to one or more reference sets.

For more genomics resource definitions, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)

func (*Reference) Descriptor deprecated

func (*Reference) Descriptor() ([]byte, []int)

Deprecated: Use Reference.ProtoReflect.Descriptor instead.

func (*Reference) GetId

func (x *Reference) GetId() string

func (*Reference) GetLength

func (x *Reference) GetLength() int64

func (*Reference) GetMd5Checksum

func (x *Reference) GetMd5Checksum() string

func (*Reference) GetName

func (x *Reference) GetName() string

func (*Reference) GetNcbiTaxonId

func (x *Reference) GetNcbiTaxonId() int32

func (*Reference) GetSourceAccessions

func (x *Reference) GetSourceAccessions() []string

func (*Reference) GetSourceUri

func (x *Reference) GetSourceUri() string

func (*Reference) ProtoMessage

func (*Reference) ProtoMessage()

func (*Reference) ProtoReflect

func (x *Reference) ProtoReflect() protoreflect.Message

func (*Reference) Reset

func (x *Reference) Reset()

func (*Reference) String

func (x *Reference) String() string

type ReferenceBound

type ReferenceBound struct {

	// The name of the reference associated with this reference bound.
	ReferenceName string `protobuf:"bytes,1,opt,name=reference_name,json=referenceName,proto3" json:"reference_name,omitempty"`
	// An upper bound (inclusive) on the starting coordinate of any
	// variant in the reference sequence.
	UpperBound int64 `protobuf:"varint,2,opt,name=upper_bound,json=upperBound,proto3" json:"upper_bound,omitempty"`
	// contains filtered or unexported fields
}

ReferenceBound records an upper bound for the starting coordinate of variants in a particular reference.

func (*ReferenceBound) Descriptor deprecated

func (*ReferenceBound) Descriptor() ([]byte, []int)

Deprecated: Use ReferenceBound.ProtoReflect.Descriptor instead.

func (*ReferenceBound) GetReferenceName

func (x *ReferenceBound) GetReferenceName() string

func (*ReferenceBound) GetUpperBound

func (x *ReferenceBound) GetUpperBound() int64

func (*ReferenceBound) ProtoMessage

func (*ReferenceBound) ProtoMessage()

func (*ReferenceBound) ProtoReflect

func (x *ReferenceBound) ProtoReflect() protoreflect.Message

func (*ReferenceBound) Reset

func (x *ReferenceBound) Reset()

func (*ReferenceBound) String

func (x *ReferenceBound) String() string

type ReferenceServiceV1Client

type ReferenceServiceV1Client interface {
	// Searches for reference sets which match the given criteria.
	//
	// For the definitions of references and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	//
	// Implements
	// [GlobalAllianceApi.searchReferenceSets](https://github.com/ga4gh/schemas/blob/v0.5.1/src/main/resources/avro/referencemethods.avdl#L71)
	SearchReferenceSets(ctx context.Context, in *SearchReferenceSetsRequest, opts ...grpc.CallOption) (*SearchReferenceSetsResponse, error)
	// Gets a reference set.
	//
	// For the definitions of references and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	//
	// Implements
	// [GlobalAllianceApi.getReferenceSet](https://github.com/ga4gh/schemas/blob/v0.5.1/src/main/resources/avro/referencemethods.avdl#L83).
	GetReferenceSet(ctx context.Context, in *GetReferenceSetRequest, opts ...grpc.CallOption) (*ReferenceSet, error)
	// Searches for references which match the given criteria.
	//
	// For the definitions of references and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	//
	// Implements
	// [GlobalAllianceApi.searchReferences](https://github.com/ga4gh/schemas/blob/v0.5.1/src/main/resources/avro/referencemethods.avdl#L146).
	SearchReferences(ctx context.Context, in *SearchReferencesRequest, opts ...grpc.CallOption) (*SearchReferencesResponse, error)
	// Gets a reference.
	//
	// For the definitions of references and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	//
	// Implements
	// [GlobalAllianceApi.getReference](https://github.com/ga4gh/schemas/blob/v0.5.1/src/main/resources/avro/referencemethods.avdl#L158).
	GetReference(ctx context.Context, in *GetReferenceRequest, opts ...grpc.CallOption) (*Reference, error)
	// Lists the bases in a reference, optionally restricted to a range.
	//
	// For the definitions of references and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	//
	// Implements
	// [GlobalAllianceApi.getReferenceBases](https://github.com/ga4gh/schemas/blob/v0.5.1/src/main/resources/avro/referencemethods.avdl#L221).
	ListBases(ctx context.Context, in *ListBasesRequest, opts ...grpc.CallOption) (*ListBasesResponse, error)
}

ReferenceServiceV1Client is the client API for ReferenceServiceV1 service.

For semantics around ctx use and closing/ending streaming RPCs, please refer to https://godoc.org/google.golang.org/grpc#ClientConn.NewStream.

type ReferenceServiceV1Server

type ReferenceServiceV1Server interface {
	// Searches for reference sets which match the given criteria.
	//
	// For the definitions of references and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	//
	// Implements
	// [GlobalAllianceApi.searchReferenceSets](https://github.com/ga4gh/schemas/blob/v0.5.1/src/main/resources/avro/referencemethods.avdl#L71)
	SearchReferenceSets(context.Context, *SearchReferenceSetsRequest) (*SearchReferenceSetsResponse, error)
	// Gets a reference set.
	//
	// For the definitions of references and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	//
	// Implements
	// [GlobalAllianceApi.getReferenceSet](https://github.com/ga4gh/schemas/blob/v0.5.1/src/main/resources/avro/referencemethods.avdl#L83).
	GetReferenceSet(context.Context, *GetReferenceSetRequest) (*ReferenceSet, error)
	// Searches for references which match the given criteria.
	//
	// For the definitions of references and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	//
	// Implements
	// [GlobalAllianceApi.searchReferences](https://github.com/ga4gh/schemas/blob/v0.5.1/src/main/resources/avro/referencemethods.avdl#L146).
	SearchReferences(context.Context, *SearchReferencesRequest) (*SearchReferencesResponse, error)
	// Gets a reference.
	//
	// For the definitions of references and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	//
	// Implements
	// [GlobalAllianceApi.getReference](https://github.com/ga4gh/schemas/blob/v0.5.1/src/main/resources/avro/referencemethods.avdl#L158).
	GetReference(context.Context, *GetReferenceRequest) (*Reference, error)
	// Lists the bases in a reference, optionally restricted to a range.
	//
	// For the definitions of references and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	//
	// Implements
	// [GlobalAllianceApi.getReferenceBases](https://github.com/ga4gh/schemas/blob/v0.5.1/src/main/resources/avro/referencemethods.avdl#L221).
	ListBases(context.Context, *ListBasesRequest) (*ListBasesResponse, error)
}

ReferenceServiceV1Server is the server API for ReferenceServiceV1 service.

type ReferenceSet

type ReferenceSet struct {

	// The server-generated reference set ID, unique across all reference sets.
	Id string `protobuf:"bytes,1,opt,name=id,proto3" json:"id,omitempty"`
	// The IDs of the reference objects that are part of this set.
	// `Reference.md5checksum` must be unique within this set.
	ReferenceIds []string `protobuf:"bytes,2,rep,name=reference_ids,json=referenceIds,proto3" json:"reference_ids,omitempty"`
	// Order-independent MD5 checksum which identifies this reference set. The
	// checksum is computed by sorting all lower case hexidecimal string
	// `reference.md5checksum` (for all reference in this set) in
	// ascending lexicographic order, concatenating, and taking the MD5 of that
	// value. The resulting value is represented in lower case hexadecimal format.
	Md5Checksum string `protobuf:"bytes,3,opt,name=md5checksum,proto3" json:"md5checksum,omitempty"`
	// ID from http://www.ncbi.nlm.nih.gov/taxonomy (for example, 9606 for human)
	// indicating the species which this reference set is intended to model. Note
	// that contained references may specify a different `ncbiTaxonId`, as
	// assemblies may contain reference sequences which do not belong to the
	// modeled species, for example EBV in a human reference genome.
	NcbiTaxonId int32 `protobuf:"varint,4,opt,name=ncbi_taxon_id,json=ncbiTaxonId,proto3" json:"ncbi_taxon_id,omitempty"`
	// Free text description of this reference set.
	Description string `protobuf:"bytes,5,opt,name=description,proto3" json:"description,omitempty"`
	// Public id of this reference set, such as `GRCh37`.
	AssemblyId string `protobuf:"bytes,6,opt,name=assembly_id,json=assemblyId,proto3" json:"assembly_id,omitempty"`
	// The URI from which the references were obtained.
	SourceUri string `protobuf:"bytes,7,opt,name=source_uri,json=sourceUri,proto3" json:"source_uri,omitempty"`
	// All known corresponding accession IDs in INSDC (GenBank/ENA/DDBJ) ideally
	// with a version number, for example `NC_000001.11`.
	SourceAccessions []string `protobuf:"bytes,8,rep,name=source_accessions,json=sourceAccessions,proto3" json:"source_accessions,omitempty"`
	// contains filtered or unexported fields
}

A reference set is a set of references which typically comprise a reference assembly for a species, such as `GRCh38` which is representative of the human genome. A reference set defines a common coordinate space for comparing reference-aligned experimental data. A reference set contains 1 or more references.

For more genomics resource definitions, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)

func (*ReferenceSet) Descriptor deprecated

func (*ReferenceSet) Descriptor() ([]byte, []int)

Deprecated: Use ReferenceSet.ProtoReflect.Descriptor instead.

func (*ReferenceSet) GetAssemblyId

func (x *ReferenceSet) GetAssemblyId() string

func (*ReferenceSet) GetDescription

func (x *ReferenceSet) GetDescription() string

func (*ReferenceSet) GetId

func (x *ReferenceSet) GetId() string

func (*ReferenceSet) GetMd5Checksum

func (x *ReferenceSet) GetMd5Checksum() string

func (*ReferenceSet) GetNcbiTaxonId

func (x *ReferenceSet) GetNcbiTaxonId() int32

func (*ReferenceSet) GetReferenceIds

func (x *ReferenceSet) GetReferenceIds() []string

func (*ReferenceSet) GetSourceAccessions

func (x *ReferenceSet) GetSourceAccessions() []string

func (*ReferenceSet) GetSourceUri

func (x *ReferenceSet) GetSourceUri() string

func (*ReferenceSet) ProtoMessage

func (*ReferenceSet) ProtoMessage()

func (*ReferenceSet) ProtoReflect

func (x *ReferenceSet) ProtoReflect() protoreflect.Message

func (*ReferenceSet) Reset

func (x *ReferenceSet) Reset()

func (*ReferenceSet) String

func (x *ReferenceSet) String() string

type SearchAnnotationSetsRequest

type SearchAnnotationSetsRequest struct {

	// Required. The dataset IDs to search within. Caller must have `READ` access
	// to these datasets.
	DatasetIds []string `protobuf:"bytes,1,rep,name=dataset_ids,json=datasetIds,proto3" json:"dataset_ids,omitempty"`
	// If specified, only annotation sets associated with the given reference set
	// are returned.
	ReferenceSetId string `protobuf:"bytes,2,opt,name=reference_set_id,json=referenceSetId,proto3" json:"reference_set_id,omitempty"`
	// Only return annotations sets for which a substring of the name matches this
	// string (case insensitive).
	Name string `protobuf:"bytes,3,opt,name=name,proto3" json:"name,omitempty"`
	// If specified, only annotation sets that have any of these types are
	// returned.
	Types []AnnotationType `protobuf:"varint,4,rep,packed,name=types,proto3,enum=google.genomics.v1.AnnotationType" json:"types,omitempty"`
	// The continuation token, which is used to page through large result sets.
	// To get the next page of results, set this parameter to the value of
	// `nextPageToken` from the previous response.
	PageToken string `protobuf:"bytes,5,opt,name=page_token,json=pageToken,proto3" json:"page_token,omitempty"`
	// The maximum number of results to return in a single page. If unspecified,
	// defaults to 128. The maximum value is 1024.
	PageSize int32 `protobuf:"varint,6,opt,name=page_size,json=pageSize,proto3" json:"page_size,omitempty"`
	// contains filtered or unexported fields
}

func (*SearchAnnotationSetsRequest) Descriptor deprecated

func (*SearchAnnotationSetsRequest) Descriptor() ([]byte, []int)

Deprecated: Use SearchAnnotationSetsRequest.ProtoReflect.Descriptor instead.

func (*SearchAnnotationSetsRequest) GetDatasetIds

func (x *SearchAnnotationSetsRequest) GetDatasetIds() []string

func (*SearchAnnotationSetsRequest) GetName

func (x *SearchAnnotationSetsRequest) GetName() string

func (*SearchAnnotationSetsRequest) GetPageSize

func (x *SearchAnnotationSetsRequest) GetPageSize() int32

func (*SearchAnnotationSetsRequest) GetPageToken

func (x *SearchAnnotationSetsRequest) GetPageToken() string

func (*SearchAnnotationSetsRequest) GetReferenceSetId

func (x *SearchAnnotationSetsRequest) GetReferenceSetId() string

func (*SearchAnnotationSetsRequest) GetTypes

func (*SearchAnnotationSetsRequest) ProtoMessage

func (*SearchAnnotationSetsRequest) ProtoMessage()

func (*SearchAnnotationSetsRequest) ProtoReflect

func (*SearchAnnotationSetsRequest) Reset

func (x *SearchAnnotationSetsRequest) Reset()

func (*SearchAnnotationSetsRequest) String

func (x *SearchAnnotationSetsRequest) String() string

type SearchAnnotationSetsResponse

type SearchAnnotationSetsResponse struct {

	// The matching annotation sets.
	AnnotationSets []*AnnotationSet `protobuf:"bytes,1,rep,name=annotation_sets,json=annotationSets,proto3" json:"annotation_sets,omitempty"`
	// The continuation token, which is used to page through large result sets.
	// Provide this value in a subsequent request to return the next page of
	// results. This field will be empty if there aren't any additional results.
	NextPageToken string `protobuf:"bytes,2,opt,name=next_page_token,json=nextPageToken,proto3" json:"next_page_token,omitempty"`
	// contains filtered or unexported fields
}

func (*SearchAnnotationSetsResponse) Descriptor deprecated

func (*SearchAnnotationSetsResponse) Descriptor() ([]byte, []int)

Deprecated: Use SearchAnnotationSetsResponse.ProtoReflect.Descriptor instead.

func (*SearchAnnotationSetsResponse) GetAnnotationSets

func (x *SearchAnnotationSetsResponse) GetAnnotationSets() []*AnnotationSet

func (*SearchAnnotationSetsResponse) GetNextPageToken

func (x *SearchAnnotationSetsResponse) GetNextPageToken() string

func (*SearchAnnotationSetsResponse) ProtoMessage

func (*SearchAnnotationSetsResponse) ProtoMessage()

func (*SearchAnnotationSetsResponse) ProtoReflect

func (*SearchAnnotationSetsResponse) Reset

func (x *SearchAnnotationSetsResponse) Reset()

func (*SearchAnnotationSetsResponse) String

type SearchAnnotationsRequest

type SearchAnnotationsRequest struct {

	// Required. The annotation sets to search within. The caller must have
	// `READ` access to these annotation sets.
	// All queried annotation sets must have the same type.
	AnnotationSetIds []string `protobuf:"bytes,1,rep,name=annotation_set_ids,json=annotationSetIds,proto3" json:"annotation_set_ids,omitempty"`
	// Required. `reference_id` or `reference_name` must be set.
	//
	// Types that are assignable to Reference:
	//	*SearchAnnotationsRequest_ReferenceId
	//	*SearchAnnotationsRequest_ReferenceName
	Reference isSearchAnnotationsRequest_Reference `protobuf_oneof:"reference"`
	// The start position of the range on the reference, 0-based inclusive. If
	// specified,
	// [referenceId][google.genomics.v1.SearchAnnotationsRequest.reference_id] or
	// [referenceName][google.genomics.v1.SearchAnnotationsRequest.reference_name]
	// must be specified. Defaults to 0.
	Start int64 `protobuf:"varint,4,opt,name=start,proto3" json:"start,omitempty"`
	// The end position of the range on the reference, 0-based exclusive. If
	// [referenceId][google.genomics.v1.SearchAnnotationsRequest.reference_id] or
	// [referenceName][google.genomics.v1.SearchAnnotationsRequest.reference_name]
	// must be specified, Defaults to the length of the reference.
	End int64 `protobuf:"varint,5,opt,name=end,proto3" json:"end,omitempty"`
	// The continuation token, which is used to page through large result sets.
	// To get the next page of results, set this parameter to the value of
	// `nextPageToken` from the previous response.
	PageToken string `protobuf:"bytes,6,opt,name=page_token,json=pageToken,proto3" json:"page_token,omitempty"`
	// The maximum number of results to return in a single page. If unspecified,
	// defaults to 256. The maximum value is 2048.
	PageSize int32 `protobuf:"varint,7,opt,name=page_size,json=pageSize,proto3" json:"page_size,omitempty"`
	// contains filtered or unexported fields
}

func (*SearchAnnotationsRequest) Descriptor deprecated

func (*SearchAnnotationsRequest) Descriptor() ([]byte, []int)

Deprecated: Use SearchAnnotationsRequest.ProtoReflect.Descriptor instead.

func (*SearchAnnotationsRequest) GetAnnotationSetIds

func (x *SearchAnnotationsRequest) GetAnnotationSetIds() []string

func (*SearchAnnotationsRequest) GetEnd

func (x *SearchAnnotationsRequest) GetEnd() int64

func (*SearchAnnotationsRequest) GetPageSize

func (x *SearchAnnotationsRequest) GetPageSize() int32

func (*SearchAnnotationsRequest) GetPageToken

func (x *SearchAnnotationsRequest) GetPageToken() string

func (*SearchAnnotationsRequest) GetReference

func (m *SearchAnnotationsRequest) GetReference() isSearchAnnotationsRequest_Reference

func (*SearchAnnotationsRequest) GetReferenceId

func (x *SearchAnnotationsRequest) GetReferenceId() string

func (*SearchAnnotationsRequest) GetReferenceName

func (x *SearchAnnotationsRequest) GetReferenceName() string

func (*SearchAnnotationsRequest) GetStart

func (x *SearchAnnotationsRequest) GetStart() int64

func (*SearchAnnotationsRequest) ProtoMessage

func (*SearchAnnotationsRequest) ProtoMessage()

func (*SearchAnnotationsRequest) ProtoReflect

func (x *SearchAnnotationsRequest) ProtoReflect() protoreflect.Message

func (*SearchAnnotationsRequest) Reset

func (x *SearchAnnotationsRequest) Reset()

func (*SearchAnnotationsRequest) String

func (x *SearchAnnotationsRequest) String() string

type SearchAnnotationsRequest_ReferenceId

type SearchAnnotationsRequest_ReferenceId struct {
	// The ID of the reference to query.
	ReferenceId string `protobuf:"bytes,2,opt,name=reference_id,json=referenceId,proto3,oneof"`
}

type SearchAnnotationsRequest_ReferenceName

type SearchAnnotationsRequest_ReferenceName struct {
	// The name of the reference to query, within the reference set associated
	// with this query.
	ReferenceName string `protobuf:"bytes,3,opt,name=reference_name,json=referenceName,proto3,oneof"`
}

type SearchAnnotationsResponse

type SearchAnnotationsResponse struct {

	// The matching annotations.
	Annotations []*Annotation `protobuf:"bytes,1,rep,name=annotations,proto3" json:"annotations,omitempty"`
	// The continuation token, which is used to page through large result sets.
	// Provide this value in a subsequent request to return the next page of
	// results. This field will be empty if there aren't any additional results.
	NextPageToken string `protobuf:"bytes,2,opt,name=next_page_token,json=nextPageToken,proto3" json:"next_page_token,omitempty"`
	// contains filtered or unexported fields
}

func (*SearchAnnotationsResponse) Descriptor deprecated

func (*SearchAnnotationsResponse) Descriptor() ([]byte, []int)

Deprecated: Use SearchAnnotationsResponse.ProtoReflect.Descriptor instead.

func (*SearchAnnotationsResponse) GetAnnotations

func (x *SearchAnnotationsResponse) GetAnnotations() []*Annotation

func (*SearchAnnotationsResponse) GetNextPageToken

func (x *SearchAnnotationsResponse) GetNextPageToken() string

func (*SearchAnnotationsResponse) ProtoMessage

func (*SearchAnnotationsResponse) ProtoMessage()

func (*SearchAnnotationsResponse) ProtoReflect

func (*SearchAnnotationsResponse) Reset

func (x *SearchAnnotationsResponse) Reset()

func (*SearchAnnotationsResponse) String

func (x *SearchAnnotationsResponse) String() string

type SearchCallSetsRequest

type SearchCallSetsRequest struct {

	// Restrict the query to call sets within the given variant sets. At least one
	// ID must be provided.
	VariantSetIds []string `protobuf:"bytes,1,rep,name=variant_set_ids,json=variantSetIds,proto3" json:"variant_set_ids,omitempty"`
	// Only return call sets for which a substring of the name matches this
	// string.
	Name string `protobuf:"bytes,2,opt,name=name,proto3" json:"name,omitempty"`
	// The continuation token, which is used to page through large result sets.
	// To get the next page of results, set this parameter to the value of
	// `nextPageToken` from the previous response.
	PageToken string `protobuf:"bytes,3,opt,name=page_token,json=pageToken,proto3" json:"page_token,omitempty"`
	// The maximum number of results to return in a single page. If unspecified,
	// defaults to 1024.
	PageSize int32 `protobuf:"varint,4,opt,name=page_size,json=pageSize,proto3" json:"page_size,omitempty"`
	// contains filtered or unexported fields
}

The call set search request.

func (*SearchCallSetsRequest) Descriptor deprecated

func (*SearchCallSetsRequest) Descriptor() ([]byte, []int)

Deprecated: Use SearchCallSetsRequest.ProtoReflect.Descriptor instead.

func (*SearchCallSetsRequest) GetName

func (x *SearchCallSetsRequest) GetName() string

func (*SearchCallSetsRequest) GetPageSize

func (x *SearchCallSetsRequest) GetPageSize() int32

func (*SearchCallSetsRequest) GetPageToken

func (x *SearchCallSetsRequest) GetPageToken() string

func (*SearchCallSetsRequest) GetVariantSetIds

func (x *SearchCallSetsRequest) GetVariantSetIds() []string

func (*SearchCallSetsRequest) ProtoMessage

func (*SearchCallSetsRequest) ProtoMessage()

func (*SearchCallSetsRequest) ProtoReflect

func (x *SearchCallSetsRequest) ProtoReflect() protoreflect.Message

func (*SearchCallSetsRequest) Reset

func (x *SearchCallSetsRequest) Reset()

func (*SearchCallSetsRequest) String

func (x *SearchCallSetsRequest) String() string

type SearchCallSetsResponse

type SearchCallSetsResponse struct {

	// The list of matching call sets.
	CallSets []*CallSet `protobuf:"bytes,1,rep,name=call_sets,json=callSets,proto3" json:"call_sets,omitempty"`
	// The continuation token, which is used to page through large result sets.
	// Provide this value in a subsequent request to return the next page of
	// results. This field will be empty if there aren't any additional results.
	NextPageToken string `protobuf:"bytes,2,opt,name=next_page_token,json=nextPageToken,proto3" json:"next_page_token,omitempty"`
	// contains filtered or unexported fields
}

The call set search response.

func (*SearchCallSetsResponse) Descriptor deprecated

func (*SearchCallSetsResponse) Descriptor() ([]byte, []int)

Deprecated: Use SearchCallSetsResponse.ProtoReflect.Descriptor instead.

func (*SearchCallSetsResponse) GetCallSets

func (x *SearchCallSetsResponse) GetCallSets() []*CallSet

func (*SearchCallSetsResponse) GetNextPageToken

func (x *SearchCallSetsResponse) GetNextPageToken() string

func (*SearchCallSetsResponse) ProtoMessage

func (*SearchCallSetsResponse) ProtoMessage()

func (*SearchCallSetsResponse) ProtoReflect

func (x *SearchCallSetsResponse) ProtoReflect() protoreflect.Message

func (*SearchCallSetsResponse) Reset

func (x *SearchCallSetsResponse) Reset()

func (*SearchCallSetsResponse) String

func (x *SearchCallSetsResponse) String() string

type SearchReadGroupSetsRequest

type SearchReadGroupSetsRequest struct {

	// Restricts this query to read group sets within the given datasets. At least
	// one ID must be provided.
	DatasetIds []string `protobuf:"bytes,1,rep,name=dataset_ids,json=datasetIds,proto3" json:"dataset_ids,omitempty"`
	// Only return read group sets for which a substring of the name matches this
	// string.
	Name string `protobuf:"bytes,3,opt,name=name,proto3" json:"name,omitempty"`
	// The continuation token, which is used to page through large result sets.
	// To get the next page of results, set this parameter to the value of
	// `nextPageToken` from the previous response.
	PageToken string `protobuf:"bytes,2,opt,name=page_token,json=pageToken,proto3" json:"page_token,omitempty"`
	// The maximum number of results to return in a single page. If unspecified,
	// defaults to 256. The maximum value is 1024.
	PageSize int32 `protobuf:"varint,4,opt,name=page_size,json=pageSize,proto3" json:"page_size,omitempty"`
	// contains filtered or unexported fields
}

The read group set search request.

func (*SearchReadGroupSetsRequest) Descriptor deprecated

func (*SearchReadGroupSetsRequest) Descriptor() ([]byte, []int)

Deprecated: Use SearchReadGroupSetsRequest.ProtoReflect.Descriptor instead.

func (*SearchReadGroupSetsRequest) GetDatasetIds

func (x *SearchReadGroupSetsRequest) GetDatasetIds() []string

func (*SearchReadGroupSetsRequest) GetName

func (x *SearchReadGroupSetsRequest) GetName() string

func (*SearchReadGroupSetsRequest) GetPageSize

func (x *SearchReadGroupSetsRequest) GetPageSize() int32

func (*SearchReadGroupSetsRequest) GetPageToken

func (x *SearchReadGroupSetsRequest) GetPageToken() string

func (*SearchReadGroupSetsRequest) ProtoMessage

func (*SearchReadGroupSetsRequest) ProtoMessage()

func (*SearchReadGroupSetsRequest) ProtoReflect

func (*SearchReadGroupSetsRequest) Reset

func (x *SearchReadGroupSetsRequest) Reset()

func (*SearchReadGroupSetsRequest) String

func (x *SearchReadGroupSetsRequest) String() string

type SearchReadGroupSetsResponse

type SearchReadGroupSetsResponse struct {

	// The list of matching read group sets.
	ReadGroupSets []*ReadGroupSet `protobuf:"bytes,1,rep,name=read_group_sets,json=readGroupSets,proto3" json:"read_group_sets,omitempty"`
	// The continuation token, which is used to page through large result sets.
	// Provide this value in a subsequent request to return the next page of
	// results. This field will be empty if there aren't any additional results.
	NextPageToken string `protobuf:"bytes,2,opt,name=next_page_token,json=nextPageToken,proto3" json:"next_page_token,omitempty"`
	// contains filtered or unexported fields
}

The read group set search response.

func (*SearchReadGroupSetsResponse) Descriptor deprecated

func (*SearchReadGroupSetsResponse) Descriptor() ([]byte, []int)

Deprecated: Use SearchReadGroupSetsResponse.ProtoReflect.Descriptor instead.

func (*SearchReadGroupSetsResponse) GetNextPageToken

func (x *SearchReadGroupSetsResponse) GetNextPageToken() string

func (*SearchReadGroupSetsResponse) GetReadGroupSets

func (x *SearchReadGroupSetsResponse) GetReadGroupSets() []*ReadGroupSet

func (*SearchReadGroupSetsResponse) ProtoMessage

func (*SearchReadGroupSetsResponse) ProtoMessage()

func (*SearchReadGroupSetsResponse) ProtoReflect

func (*SearchReadGroupSetsResponse) Reset

func (x *SearchReadGroupSetsResponse) Reset()

func (*SearchReadGroupSetsResponse) String

func (x *SearchReadGroupSetsResponse) String() string

type SearchReadsRequest

type SearchReadsRequest struct {

	// The IDs of the read groups sets within which to search for reads. All
	// specified read group sets must be aligned against a common set of reference
	// sequences; this defines the genomic coordinates for the query. Must specify
	// one of `readGroupSetIds` or `readGroupIds`.
	ReadGroupSetIds []string `protobuf:"bytes,1,rep,name=read_group_set_ids,json=readGroupSetIds,proto3" json:"read_group_set_ids,omitempty"`
	// The IDs of the read groups within which to search for reads. All specified
	// read groups must belong to the same read group sets. Must specify one of
	// `readGroupSetIds` or `readGroupIds`.
	ReadGroupIds []string `protobuf:"bytes,5,rep,name=read_group_ids,json=readGroupIds,proto3" json:"read_group_ids,omitempty"`
	// The reference sequence name, for example `chr1`, `1`, or `chrX`. If set to
	// `*`, only unmapped reads are returned. If unspecified, all reads (mapped
	// and unmapped) are returned.
	ReferenceName string `protobuf:"bytes,7,opt,name=reference_name,json=referenceName,proto3" json:"reference_name,omitempty"`
	// The start position of the range on the reference, 0-based inclusive. If
	// specified, `referenceName` must also be specified.
	Start int64 `protobuf:"varint,8,opt,name=start,proto3" json:"start,omitempty"`
	// The end position of the range on the reference, 0-based exclusive. If
	// specified, `referenceName` must also be specified.
	End int64 `protobuf:"varint,9,opt,name=end,proto3" json:"end,omitempty"`
	// The continuation token, which is used to page through large result sets.
	// To get the next page of results, set this parameter to the value of
	// `nextPageToken` from the previous response.
	PageToken string `protobuf:"bytes,3,opt,name=page_token,json=pageToken,proto3" json:"page_token,omitempty"`
	// The maximum number of results to return in a single page. If unspecified,
	// defaults to 256. The maximum value is 2048.
	PageSize int32 `protobuf:"varint,4,opt,name=page_size,json=pageSize,proto3" json:"page_size,omitempty"`
	// contains filtered or unexported fields
}

The read search request.

func (*SearchReadsRequest) Descriptor deprecated

func (*SearchReadsRequest) Descriptor() ([]byte, []int)

Deprecated: Use SearchReadsRequest.ProtoReflect.Descriptor instead.

func (*SearchReadsRequest) GetEnd

func (x *SearchReadsRequest) GetEnd() int64

func (*SearchReadsRequest) GetPageSize

func (x *SearchReadsRequest) GetPageSize() int32

func (*SearchReadsRequest) GetPageToken

func (x *SearchReadsRequest) GetPageToken() string

func (*SearchReadsRequest) GetReadGroupIds

func (x *SearchReadsRequest) GetReadGroupIds() []string

func (*SearchReadsRequest) GetReadGroupSetIds

func (x *SearchReadsRequest) GetReadGroupSetIds() []string

func (*SearchReadsRequest) GetReferenceName

func (x *SearchReadsRequest) GetReferenceName() string

func (*SearchReadsRequest) GetStart

func (x *SearchReadsRequest) GetStart() int64

func (*SearchReadsRequest) ProtoMessage

func (*SearchReadsRequest) ProtoMessage()

func (*SearchReadsRequest) ProtoReflect

func (x *SearchReadsRequest) ProtoReflect() protoreflect.Message

func (*SearchReadsRequest) Reset

func (x *SearchReadsRequest) Reset()

func (*SearchReadsRequest) String

func (x *SearchReadsRequest) String() string

type SearchReadsResponse

type SearchReadsResponse struct {

	// The list of matching alignments sorted by mapped genomic coordinate,
	// if any, ascending in position within the same reference. Unmapped reads,
	// which have no position, are returned contiguously and are sorted in
	// ascending lexicographic order by fragment name.
	Alignments []*Read `protobuf:"bytes,1,rep,name=alignments,proto3" json:"alignments,omitempty"`
	// The continuation token, which is used to page through large result sets.
	// Provide this value in a subsequent request to return the next page of
	// results. This field will be empty if there aren't any additional results.
	NextPageToken string `protobuf:"bytes,2,opt,name=next_page_token,json=nextPageToken,proto3" json:"next_page_token,omitempty"`
	// contains filtered or unexported fields
}

The read search response.

func (*SearchReadsResponse) Descriptor deprecated

func (*SearchReadsResponse) Descriptor() ([]byte, []int)

Deprecated: Use SearchReadsResponse.ProtoReflect.Descriptor instead.

func (*SearchReadsResponse) GetAlignments

func (x *SearchReadsResponse) GetAlignments() []*Read

func (*SearchReadsResponse) GetNextPageToken

func (x *SearchReadsResponse) GetNextPageToken() string

func (*SearchReadsResponse) ProtoMessage

func (*SearchReadsResponse) ProtoMessage()

func (*SearchReadsResponse) ProtoReflect

func (x *SearchReadsResponse) ProtoReflect() protoreflect.Message

func (*SearchReadsResponse) Reset

func (x *SearchReadsResponse) Reset()

func (*SearchReadsResponse) String

func (x *SearchReadsResponse) String() string

type SearchReferenceSetsRequest

type SearchReferenceSetsRequest struct {

	// If present, return reference sets for which the
	// [md5checksum][google.genomics.v1.ReferenceSet.md5checksum] matches exactly.
	Md5Checksums []string `protobuf:"bytes,1,rep,name=md5checksums,proto3" json:"md5checksums,omitempty"`
	// If present, return reference sets for which a prefix of any of
	// [sourceAccessions][google.genomics.v1.ReferenceSet.source_accessions]
	// match any of these strings. Accession numbers typically have a main number
	// and a version, for example `NC_000001.11`.
	Accessions []string `protobuf:"bytes,2,rep,name=accessions,proto3" json:"accessions,omitempty"`
	// If present, return reference sets for which a substring of their
	// `assemblyId` matches this string (case insensitive).
	AssemblyId string `protobuf:"bytes,3,opt,name=assembly_id,json=assemblyId,proto3" json:"assembly_id,omitempty"`
	// The continuation token, which is used to page through large result sets.
	// To get the next page of results, set this parameter to the value of
	// `nextPageToken` from the previous response.
	PageToken string `protobuf:"bytes,4,opt,name=page_token,json=pageToken,proto3" json:"page_token,omitempty"`
	// The maximum number of results to return in a single page. If unspecified,
	// defaults to 1024. The maximum value is 4096.
	PageSize int32 `protobuf:"varint,5,opt,name=page_size,json=pageSize,proto3" json:"page_size,omitempty"`
	// contains filtered or unexported fields
}

func (*SearchReferenceSetsRequest) Descriptor deprecated

func (*SearchReferenceSetsRequest) Descriptor() ([]byte, []int)

Deprecated: Use SearchReferenceSetsRequest.ProtoReflect.Descriptor instead.

func (*SearchReferenceSetsRequest) GetAccessions

func (x *SearchReferenceSetsRequest) GetAccessions() []string

func (*SearchReferenceSetsRequest) GetAssemblyId

func (x *SearchReferenceSetsRequest) GetAssemblyId() string

func (*SearchReferenceSetsRequest) GetMd5Checksums

func (x *SearchReferenceSetsRequest) GetMd5Checksums() []string

func (*SearchReferenceSetsRequest) GetPageSize

func (x *SearchReferenceSetsRequest) GetPageSize() int32

func (*SearchReferenceSetsRequest) GetPageToken

func (x *SearchReferenceSetsRequest) GetPageToken() string

func (*SearchReferenceSetsRequest) ProtoMessage

func (*SearchReferenceSetsRequest) ProtoMessage()

func (*SearchReferenceSetsRequest) ProtoReflect

func (*SearchReferenceSetsRequest) Reset

func (x *SearchReferenceSetsRequest) Reset()

func (*SearchReferenceSetsRequest) String

func (x *SearchReferenceSetsRequest) String() string

type SearchReferenceSetsResponse

type SearchReferenceSetsResponse struct {

	// The matching references sets.
	ReferenceSets []*ReferenceSet `protobuf:"bytes,1,rep,name=reference_sets,json=referenceSets,proto3" json:"reference_sets,omitempty"`
	// The continuation token, which is used to page through large result sets.
	// Provide this value in a subsequent request to return the next page of
	// results. This field will be empty if there aren't any additional results.
	NextPageToken string `protobuf:"bytes,2,opt,name=next_page_token,json=nextPageToken,proto3" json:"next_page_token,omitempty"`
	// contains filtered or unexported fields
}

func (*SearchReferenceSetsResponse) Descriptor deprecated

func (*SearchReferenceSetsResponse) Descriptor() ([]byte, []int)

Deprecated: Use SearchReferenceSetsResponse.ProtoReflect.Descriptor instead.

func (*SearchReferenceSetsResponse) GetNextPageToken

func (x *SearchReferenceSetsResponse) GetNextPageToken() string

func (*SearchReferenceSetsResponse) GetReferenceSets

func (x *SearchReferenceSetsResponse) GetReferenceSets() []*ReferenceSet

func (*SearchReferenceSetsResponse) ProtoMessage

func (*SearchReferenceSetsResponse) ProtoMessage()

func (*SearchReferenceSetsResponse) ProtoReflect

func (*SearchReferenceSetsResponse) Reset

func (x *SearchReferenceSetsResponse) Reset()

func (*SearchReferenceSetsResponse) String

func (x *SearchReferenceSetsResponse) String() string

type SearchReferencesRequest

type SearchReferencesRequest struct {

	// If present, return references for which the
	// [md5checksum][google.genomics.v1.Reference.md5checksum] matches exactly.
	Md5Checksums []string `protobuf:"bytes,1,rep,name=md5checksums,proto3" json:"md5checksums,omitempty"`
	// If present, return references for which a prefix of any of
	// [sourceAccessions][google.genomics.v1.Reference.source_accessions] match
	// any of these strings. Accession numbers typically have a main number and a
	// version, for example `GCF_000001405.26`.
	Accessions []string `protobuf:"bytes,2,rep,name=accessions,proto3" json:"accessions,omitempty"`
	// If present, return only references which belong to this reference set.
	ReferenceSetId string `protobuf:"bytes,3,opt,name=reference_set_id,json=referenceSetId,proto3" json:"reference_set_id,omitempty"`
	// The continuation token, which is used to page through large result sets.
	// To get the next page of results, set this parameter to the value of
	// `nextPageToken` from the previous response.
	PageToken string `protobuf:"bytes,4,opt,name=page_token,json=pageToken,proto3" json:"page_token,omitempty"`
	// The maximum number of results to return in a single page. If unspecified,
	// defaults to 1024. The maximum value is 4096.
	PageSize int32 `protobuf:"varint,5,opt,name=page_size,json=pageSize,proto3" json:"page_size,omitempty"`
	// contains filtered or unexported fields
}

func (*SearchReferencesRequest) Descriptor deprecated

func (*SearchReferencesRequest) Descriptor() ([]byte, []int)

Deprecated: Use SearchReferencesRequest.ProtoReflect.Descriptor instead.

func (*SearchReferencesRequest) GetAccessions

func (x *SearchReferencesRequest) GetAccessions() []string

func (*SearchReferencesRequest) GetMd5Checksums

func (x *SearchReferencesRequest) GetMd5Checksums() []string

func (*SearchReferencesRequest) GetPageSize

func (x *SearchReferencesRequest) GetPageSize() int32

func (*SearchReferencesRequest) GetPageToken

func (x *SearchReferencesRequest) GetPageToken() string

func (*SearchReferencesRequest) GetReferenceSetId

func (x *SearchReferencesRequest) GetReferenceSetId() string

func (*SearchReferencesRequest) ProtoMessage

func (*SearchReferencesRequest) ProtoMessage()

func (*SearchReferencesRequest) ProtoReflect

func (x *SearchReferencesRequest) ProtoReflect() protoreflect.Message

func (*SearchReferencesRequest) Reset

func (x *SearchReferencesRequest) Reset()

func (*SearchReferencesRequest) String

func (x *SearchReferencesRequest) String() string

type SearchReferencesResponse

type SearchReferencesResponse struct {

	// The matching references.
	References []*Reference `protobuf:"bytes,1,rep,name=references,proto3" json:"references,omitempty"`
	// The continuation token, which is used to page through large result sets.
	// Provide this value in a subsequent request to return the next page of
	// results. This field will be empty if there aren't any additional results.
	NextPageToken string `protobuf:"bytes,2,opt,name=next_page_token,json=nextPageToken,proto3" json:"next_page_token,omitempty"`
	// contains filtered or unexported fields
}

func (*SearchReferencesResponse) Descriptor deprecated

func (*SearchReferencesResponse) Descriptor() ([]byte, []int)

Deprecated: Use SearchReferencesResponse.ProtoReflect.Descriptor instead.

func (*SearchReferencesResponse) GetNextPageToken

func (x *SearchReferencesResponse) GetNextPageToken() string

func (*SearchReferencesResponse) GetReferences

func (x *SearchReferencesResponse) GetReferences() []*Reference

func (*SearchReferencesResponse) ProtoMessage

func (*SearchReferencesResponse) ProtoMessage()

func (*SearchReferencesResponse) ProtoReflect

func (x *SearchReferencesResponse) ProtoReflect() protoreflect.Message

func (*SearchReferencesResponse) Reset

func (x *SearchReferencesResponse) Reset()

func (*SearchReferencesResponse) String

func (x *SearchReferencesResponse) String() string

type SearchVariantSetsRequest

type SearchVariantSetsRequest struct {

	// Exactly one dataset ID must be provided here. Only variant sets which
	// belong to this dataset will be returned.
	DatasetIds []string `protobuf:"bytes,1,rep,name=dataset_ids,json=datasetIds,proto3" json:"dataset_ids,omitempty"`
	// The continuation token, which is used to page through large result sets.
	// To get the next page of results, set this parameter to the value of
	// `nextPageToken` from the previous response.
	PageToken string `protobuf:"bytes,2,opt,name=page_token,json=pageToken,proto3" json:"page_token,omitempty"`
	// The maximum number of results to return in a single page. If unspecified,
	// defaults to 1024.
	PageSize int32 `protobuf:"varint,3,opt,name=page_size,json=pageSize,proto3" json:"page_size,omitempty"`
	// contains filtered or unexported fields
}

The search variant sets request.

func (*SearchVariantSetsRequest) Descriptor deprecated

func (*SearchVariantSetsRequest) Descriptor() ([]byte, []int)

Deprecated: Use SearchVariantSetsRequest.ProtoReflect.Descriptor instead.

func (*SearchVariantSetsRequest) GetDatasetIds

func (x *SearchVariantSetsRequest) GetDatasetIds() []string

func (*SearchVariantSetsRequest) GetPageSize

func (x *SearchVariantSetsRequest) GetPageSize() int32

func (*SearchVariantSetsRequest) GetPageToken

func (x *SearchVariantSetsRequest) GetPageToken() string

func (*SearchVariantSetsRequest) ProtoMessage

func (*SearchVariantSetsRequest) ProtoMessage()

func (*SearchVariantSetsRequest) ProtoReflect

func (x *SearchVariantSetsRequest) ProtoReflect() protoreflect.Message

func (*SearchVariantSetsRequest) Reset

func (x *SearchVariantSetsRequest) Reset()

func (*SearchVariantSetsRequest) String

func (x *SearchVariantSetsRequest) String() string

type SearchVariantSetsResponse

type SearchVariantSetsResponse struct {

	// The variant sets belonging to the requested dataset.
	VariantSets []*VariantSet `protobuf:"bytes,1,rep,name=variant_sets,json=variantSets,proto3" json:"variant_sets,omitempty"`
	// The continuation token, which is used to page through large result sets.
	// Provide this value in a subsequent request to return the next page of
	// results. This field will be empty if there aren't any additional results.
	NextPageToken string `protobuf:"bytes,2,opt,name=next_page_token,json=nextPageToken,proto3" json:"next_page_token,omitempty"`
	// contains filtered or unexported fields
}

The search variant sets response.

func (*SearchVariantSetsResponse) Descriptor deprecated

func (*SearchVariantSetsResponse) Descriptor() ([]byte, []int)

Deprecated: Use SearchVariantSetsResponse.ProtoReflect.Descriptor instead.

func (*SearchVariantSetsResponse) GetNextPageToken

func (x *SearchVariantSetsResponse) GetNextPageToken() string

func (*SearchVariantSetsResponse) GetVariantSets

func (x *SearchVariantSetsResponse) GetVariantSets() []*VariantSet

func (*SearchVariantSetsResponse) ProtoMessage

func (*SearchVariantSetsResponse) ProtoMessage()

func (*SearchVariantSetsResponse) ProtoReflect

func (*SearchVariantSetsResponse) Reset

func (x *SearchVariantSetsResponse) Reset()

func (*SearchVariantSetsResponse) String

func (x *SearchVariantSetsResponse) String() string

type SearchVariantsRequest

type SearchVariantsRequest struct {

	// At most one variant set ID must be provided. Only variants from this
	// variant set will be returned. If omitted, a call set id must be included in
	// the request.
	VariantSetIds []string `protobuf:"bytes,1,rep,name=variant_set_ids,json=variantSetIds,proto3" json:"variant_set_ids,omitempty"`
	// Only return variants which have exactly this name.
	VariantName string `protobuf:"bytes,2,opt,name=variant_name,json=variantName,proto3" json:"variant_name,omitempty"`
	// Only return variant calls which belong to call sets with these ids.
	// Leaving this blank returns all variant calls. If a variant has no
	// calls belonging to any of these call sets, it won't be returned at all.
	CallSetIds []string `protobuf:"bytes,3,rep,name=call_set_ids,json=callSetIds,proto3" json:"call_set_ids,omitempty"`
	// Required. Only return variants in this reference sequence.
	ReferenceName string `protobuf:"bytes,4,opt,name=reference_name,json=referenceName,proto3" json:"reference_name,omitempty"`
	// The beginning of the window (0-based, inclusive) for which
	// overlapping variants should be returned. If unspecified, defaults to 0.
	Start int64 `protobuf:"varint,5,opt,name=start,proto3" json:"start,omitempty"`
	// The end of the window, 0-based exclusive. If unspecified or 0, defaults to
	// the length of the reference.
	End int64 `protobuf:"varint,6,opt,name=end,proto3" json:"end,omitempty"`
	// The continuation token, which is used to page through large result sets.
	// To get the next page of results, set this parameter to the value of
	// `nextPageToken` from the previous response.
	PageToken string `protobuf:"bytes,7,opt,name=page_token,json=pageToken,proto3" json:"page_token,omitempty"`
	// The maximum number of variants to return in a single page. If unspecified,
	// defaults to 5000. The maximum value is 10000.
	PageSize int32 `protobuf:"varint,8,opt,name=page_size,json=pageSize,proto3" json:"page_size,omitempty"`
	// The maximum number of calls to return in a single page. Note that this
	// limit may be exceeded in the event that a matching variant contains more
	// calls than the requested maximum. If unspecified, defaults to 5000. The
	// maximum value is 10000.
	MaxCalls int32 `protobuf:"varint,9,opt,name=max_calls,json=maxCalls,proto3" json:"max_calls,omitempty"`
	// contains filtered or unexported fields
}

The variant search request.

func (*SearchVariantsRequest) Descriptor deprecated

func (*SearchVariantsRequest) Descriptor() ([]byte, []int)

Deprecated: Use SearchVariantsRequest.ProtoReflect.Descriptor instead.

func (*SearchVariantsRequest) GetCallSetIds

func (x *SearchVariantsRequest) GetCallSetIds() []string

func (*SearchVariantsRequest) GetEnd

func (x *SearchVariantsRequest) GetEnd() int64

func (*SearchVariantsRequest) GetMaxCalls

func (x *SearchVariantsRequest) GetMaxCalls() int32

func (*SearchVariantsRequest) GetPageSize

func (x *SearchVariantsRequest) GetPageSize() int32

func (*SearchVariantsRequest) GetPageToken

func (x *SearchVariantsRequest) GetPageToken() string

func (*SearchVariantsRequest) GetReferenceName

func (x *SearchVariantsRequest) GetReferenceName() string

func (*SearchVariantsRequest) GetStart

func (x *SearchVariantsRequest) GetStart() int64

func (*SearchVariantsRequest) GetVariantName

func (x *SearchVariantsRequest) GetVariantName() string

func (*SearchVariantsRequest) GetVariantSetIds

func (x *SearchVariantsRequest) GetVariantSetIds() []string

func (*SearchVariantsRequest) ProtoMessage

func (*SearchVariantsRequest) ProtoMessage()

func (*SearchVariantsRequest) ProtoReflect

func (x *SearchVariantsRequest) ProtoReflect() protoreflect.Message

func (*SearchVariantsRequest) Reset

func (x *SearchVariantsRequest) Reset()

func (*SearchVariantsRequest) String

func (x *SearchVariantsRequest) String() string

type SearchVariantsResponse

type SearchVariantsResponse struct {

	// The list of matching Variants.
	Variants []*Variant `protobuf:"bytes,1,rep,name=variants,proto3" json:"variants,omitempty"`
	// The continuation token, which is used to page through large result sets.
	// Provide this value in a subsequent request to return the next page of
	// results. This field will be empty if there aren't any additional results.
	NextPageToken string `protobuf:"bytes,2,opt,name=next_page_token,json=nextPageToken,proto3" json:"next_page_token,omitempty"`
	// contains filtered or unexported fields
}

The variant search response.

func (*SearchVariantsResponse) Descriptor deprecated

func (*SearchVariantsResponse) Descriptor() ([]byte, []int)

Deprecated: Use SearchVariantsResponse.ProtoReflect.Descriptor instead.

func (*SearchVariantsResponse) GetNextPageToken

func (x *SearchVariantsResponse) GetNextPageToken() string

func (*SearchVariantsResponse) GetVariants

func (x *SearchVariantsResponse) GetVariants() []*Variant

func (*SearchVariantsResponse) ProtoMessage

func (*SearchVariantsResponse) ProtoMessage()

func (*SearchVariantsResponse) ProtoReflect

func (x *SearchVariantsResponse) ProtoReflect() protoreflect.Message

func (*SearchVariantsResponse) Reset

func (x *SearchVariantsResponse) Reset()

func (*SearchVariantsResponse) String

func (x *SearchVariantsResponse) String() string

type StreamReadsRequest

type StreamReadsRequest struct {

	// The Google Cloud project ID which will be billed
	// for this access. The caller must have WRITE access to this project.
	// Required.
	ProjectId string `protobuf:"bytes,1,opt,name=project_id,json=projectId,proto3" json:"project_id,omitempty"`
	// The ID of the read group set from which to stream reads.
	ReadGroupSetId string `protobuf:"bytes,2,opt,name=read_group_set_id,json=readGroupSetId,proto3" json:"read_group_set_id,omitempty"`
	// The reference sequence name, for example `chr1`,
	// `1`, or `chrX`. If set to *, only unmapped reads are
	// returned.
	ReferenceName string `protobuf:"bytes,3,opt,name=reference_name,json=referenceName,proto3" json:"reference_name,omitempty"`
	// The start position of the range on the reference, 0-based inclusive. If
	// specified, `referenceName` must also be specified.
	Start int64 `protobuf:"varint,4,opt,name=start,proto3" json:"start,omitempty"`
	// The end position of the range on the reference, 0-based exclusive. If
	// specified, `referenceName` must also be specified.
	End int64 `protobuf:"varint,5,opt,name=end,proto3" json:"end,omitempty"`
	// Restricts results to a shard containing approximately `1/totalShards`
	// of the normal response payload for this query. Results from a sharded
	// request are disjoint from those returned by all queries which differ only
	// in their shard parameter. A shard may yield 0 results; this is especially
	// likely for large values of `totalShards`.
	//
	// Valid values are `[0, totalShards)`.
	Shard int32 `protobuf:"varint,6,opt,name=shard,proto3" json:"shard,omitempty"`
	// Specifying `totalShards` causes a disjoint subset of the normal response
	// payload to be returned for each query with a unique `shard` parameter
	// specified. A best effort is made to yield equally sized shards. Sharding
	// can be used to distribute processing amongst workers, where each worker is
	// assigned a unique `shard` number and all workers specify the same
	// `totalShards` number. The union of reads returned for all sharded queries
	// `[0, totalShards)` is equal to those returned by a single unsharded query.
	//
	// Queries for different values of `totalShards` with common divisors will
	// share shard boundaries. For example, streaming `shard` 2 of 5
	// `totalShards` yields the same results as streaming `shard`s 4 and 5 of 10
	// `totalShards`. This property can be leveraged for adaptive retries.
	TotalShards int32 `protobuf:"varint,7,opt,name=total_shards,json=totalShards,proto3" json:"total_shards,omitempty"`
	// contains filtered or unexported fields
}

The stream reads request.

func (*StreamReadsRequest) Descriptor deprecated

func (*StreamReadsRequest) Descriptor() ([]byte, []int)

Deprecated: Use StreamReadsRequest.ProtoReflect.Descriptor instead.

func (*StreamReadsRequest) GetEnd

func (x *StreamReadsRequest) GetEnd() int64

func (*StreamReadsRequest) GetProjectId

func (x *StreamReadsRequest) GetProjectId() string

func (*StreamReadsRequest) GetReadGroupSetId

func (x *StreamReadsRequest) GetReadGroupSetId() string

func (*StreamReadsRequest) GetReferenceName

func (x *StreamReadsRequest) GetReferenceName() string

func (*StreamReadsRequest) GetShard

func (x *StreamReadsRequest) GetShard() int32

func (*StreamReadsRequest) GetStart

func (x *StreamReadsRequest) GetStart() int64

func (*StreamReadsRequest) GetTotalShards

func (x *StreamReadsRequest) GetTotalShards() int32

func (*StreamReadsRequest) ProtoMessage

func (*StreamReadsRequest) ProtoMessage()

func (*StreamReadsRequest) ProtoReflect

func (x *StreamReadsRequest) ProtoReflect() protoreflect.Message

func (*StreamReadsRequest) Reset

func (x *StreamReadsRequest) Reset()

func (*StreamReadsRequest) String

func (x *StreamReadsRequest) String() string

type StreamReadsResponse

type StreamReadsResponse struct {
	Alignments []*Read `protobuf:"bytes,1,rep,name=alignments,proto3" json:"alignments,omitempty"`
	// contains filtered or unexported fields
}

func (*StreamReadsResponse) Descriptor deprecated

func (*StreamReadsResponse) Descriptor() ([]byte, []int)

Deprecated: Use StreamReadsResponse.ProtoReflect.Descriptor instead.

func (*StreamReadsResponse) GetAlignments

func (x *StreamReadsResponse) GetAlignments() []*Read

func (*StreamReadsResponse) ProtoMessage

func (*StreamReadsResponse) ProtoMessage()

func (*StreamReadsResponse) ProtoReflect

func (x *StreamReadsResponse) ProtoReflect() protoreflect.Message

func (*StreamReadsResponse) Reset

func (x *StreamReadsResponse) Reset()

func (*StreamReadsResponse) String

func (x *StreamReadsResponse) String() string

type StreamVariantsRequest

type StreamVariantsRequest struct {

	// The Google Cloud project ID which will be billed
	// for this access. The caller must have WRITE access to this project.
	// Required.
	ProjectId string `protobuf:"bytes,1,opt,name=project_id,json=projectId,proto3" json:"project_id,omitempty"`
	// The variant set ID from which to stream variants.
	VariantSetId string `protobuf:"bytes,2,opt,name=variant_set_id,json=variantSetId,proto3" json:"variant_set_id,omitempty"`
	// Only return variant calls which belong to call sets with these IDs.
	// Leaving this blank returns all variant calls.
	CallSetIds []string `protobuf:"bytes,3,rep,name=call_set_ids,json=callSetIds,proto3" json:"call_set_ids,omitempty"`
	// Required. Only return variants in this reference sequence.
	ReferenceName string `protobuf:"bytes,4,opt,name=reference_name,json=referenceName,proto3" json:"reference_name,omitempty"`
	// The beginning of the window (0-based, inclusive) for which
	// overlapping variants should be returned.
	Start int64 `protobuf:"varint,5,opt,name=start,proto3" json:"start,omitempty"`
	// The end of the window (0-based, exclusive) for which overlapping
	// variants should be returned.
	End int64 `protobuf:"varint,6,opt,name=end,proto3" json:"end,omitempty"`
	// contains filtered or unexported fields
}

The stream variants request.

func (*StreamVariantsRequest) Descriptor deprecated

func (*StreamVariantsRequest) Descriptor() ([]byte, []int)

Deprecated: Use StreamVariantsRequest.ProtoReflect.Descriptor instead.

func (*StreamVariantsRequest) GetCallSetIds

func (x *StreamVariantsRequest) GetCallSetIds() []string

func (*StreamVariantsRequest) GetEnd

func (x *StreamVariantsRequest) GetEnd() int64

func (*StreamVariantsRequest) GetProjectId

func (x *StreamVariantsRequest) GetProjectId() string

func (*StreamVariantsRequest) GetReferenceName

func (x *StreamVariantsRequest) GetReferenceName() string

func (*StreamVariantsRequest) GetStart

func (x *StreamVariantsRequest) GetStart() int64

func (*StreamVariantsRequest) GetVariantSetId

func (x *StreamVariantsRequest) GetVariantSetId() string

func (*StreamVariantsRequest) ProtoMessage

func (*StreamVariantsRequest) ProtoMessage()

func (*StreamVariantsRequest) ProtoReflect

func (x *StreamVariantsRequest) ProtoReflect() protoreflect.Message

func (*StreamVariantsRequest) Reset

func (x *StreamVariantsRequest) Reset()

func (*StreamVariantsRequest) String

func (x *StreamVariantsRequest) String() string

type StreamVariantsResponse

type StreamVariantsResponse struct {
	Variants []*Variant `protobuf:"bytes,1,rep,name=variants,proto3" json:"variants,omitempty"`
	// contains filtered or unexported fields
}

func (*StreamVariantsResponse) Descriptor deprecated

func (*StreamVariantsResponse) Descriptor() ([]byte, []int)

Deprecated: Use StreamVariantsResponse.ProtoReflect.Descriptor instead.

func (*StreamVariantsResponse) GetVariants

func (x *StreamVariantsResponse) GetVariants() []*Variant

func (*StreamVariantsResponse) ProtoMessage

func (*StreamVariantsResponse) ProtoMessage()

func (*StreamVariantsResponse) ProtoReflect

func (x *StreamVariantsResponse) ProtoReflect() protoreflect.Message

func (*StreamVariantsResponse) Reset

func (x *StreamVariantsResponse) Reset()

func (*StreamVariantsResponse) String

func (x *StreamVariantsResponse) String() string

type StreamingReadServiceClient

type StreamingReadServiceClient interface {
	// Returns a stream of all the reads matching the search request, ordered
	// by reference name, position, and ID.
	StreamReads(ctx context.Context, in *StreamReadsRequest, opts ...grpc.CallOption) (StreamingReadService_StreamReadsClient, error)
}

StreamingReadServiceClient is the client API for StreamingReadService service.

For semantics around ctx use and closing/ending streaming RPCs, please refer to https://godoc.org/google.golang.org/grpc#ClientConn.NewStream.

type StreamingReadServiceServer

type StreamingReadServiceServer interface {
	// Returns a stream of all the reads matching the search request, ordered
	// by reference name, position, and ID.
	StreamReads(*StreamReadsRequest, StreamingReadService_StreamReadsServer) error
}

StreamingReadServiceServer is the server API for StreamingReadService service.

type StreamingReadService_StreamReadsClient

type StreamingReadService_StreamReadsClient interface {
	Recv() (*StreamReadsResponse, error)
	grpc.ClientStream
}

type StreamingReadService_StreamReadsServer

type StreamingReadService_StreamReadsServer interface {
	Send(*StreamReadsResponse) error
	grpc.ServerStream
}

type StreamingVariantServiceClient

type StreamingVariantServiceClient interface {
	// Returns a stream of all the variants matching the search request, ordered
	// by reference name, position, and ID.
	StreamVariants(ctx context.Context, in *StreamVariantsRequest, opts ...grpc.CallOption) (StreamingVariantService_StreamVariantsClient, error)
}

StreamingVariantServiceClient is the client API for StreamingVariantService service.

For semantics around ctx use and closing/ending streaming RPCs, please refer to https://godoc.org/google.golang.org/grpc#ClientConn.NewStream.

type StreamingVariantServiceServer

type StreamingVariantServiceServer interface {
	// Returns a stream of all the variants matching the search request, ordered
	// by reference name, position, and ID.
	StreamVariants(*StreamVariantsRequest, StreamingVariantService_StreamVariantsServer) error
}

StreamingVariantServiceServer is the server API for StreamingVariantService service.

type StreamingVariantService_StreamVariantsClient

type StreamingVariantService_StreamVariantsClient interface {
	Recv() (*StreamVariantsResponse, error)
	grpc.ClientStream
}

type StreamingVariantService_StreamVariantsServer

type StreamingVariantService_StreamVariantsServer interface {
	Send(*StreamVariantsResponse) error
	grpc.ServerStream
}

type Transcript

type Transcript struct {

	// The annotation ID of the gene from which this transcript is transcribed.
	GeneId string `protobuf:"bytes,1,opt,name=gene_id,json=geneId,proto3" json:"gene_id,omitempty"`
	// The <a href="http://en.wikipedia.org/wiki/Exon">exons</a> that compose
	// this transcript. This field should be unset for genomes where transcript
	// splicing does not occur, for example prokaryotes.
	//
	// Introns are regions of the transcript that are not included in the
	// spliced RNA product. Though not explicitly modeled here, intron ranges can
	// be deduced; all regions of this transcript that are not exons are introns.
	//
	// Exonic sequences do not necessarily code for a translational product
	// (amino acids). Only the regions of exons bounded by the
	// [codingSequence][google.genomics.v1.Transcript.coding_sequence] correspond
	// to coding DNA sequence.
	//
	// Exons are ordered by start position and may not overlap.
	Exons []*Transcript_Exon `protobuf:"bytes,2,rep,name=exons,proto3" json:"exons,omitempty"`
	// The range of the coding sequence for this transcript, if any. To determine
	// the exact ranges of coding sequence, intersect this range with those of the
	// [exons][google.genomics.v1.Transcript.exons], if any. If there are any
	// [exons][google.genomics.v1.Transcript.exons], the
	// [codingSequence][google.genomics.v1.Transcript.coding_sequence] must start
	// and end within them.
	//
	// Note that in some cases, the reference genome will not exactly match the
	// observed mRNA transcript e.g. due to variance in the source genome from
	// reference. In these cases,
	// [exon.frame][google.genomics.v1.Transcript.Exon.frame] will not necessarily
	// match the expected reference reading frame and coding exon reference bases
	// cannot necessarily be concatenated to produce the original transcript mRNA.
	CodingSequence *Transcript_CodingSequence `protobuf:"bytes,3,opt,name=coding_sequence,json=codingSequence,proto3" json:"coding_sequence,omitempty"`
	// contains filtered or unexported fields
}

A transcript represents the assertion that a particular region of the reference genome may be transcribed as RNA.

func (*Transcript) Descriptor deprecated

func (*Transcript) Descriptor() ([]byte, []int)

Deprecated: Use Transcript.ProtoReflect.Descriptor instead.

func (*Transcript) GetCodingSequence

func (x *Transcript) GetCodingSequence() *Transcript_CodingSequence

func (*Transcript) GetExons

func (x *Transcript) GetExons() []*Transcript_Exon

func (*Transcript) GetGeneId

func (x *Transcript) GetGeneId() string

func (*Transcript) ProtoMessage

func (*Transcript) ProtoMessage()

func (*Transcript) ProtoReflect

func (x *Transcript) ProtoReflect() protoreflect.Message

func (*Transcript) Reset

func (x *Transcript) Reset()

func (*Transcript) String

func (x *Transcript) String() string

type Transcript_CodingSequence

type Transcript_CodingSequence struct {

	// The start of the coding sequence on this annotation's reference sequence,
	// 0-based inclusive. Note that this position is relative to the reference
	// start, and *not* the containing annotation start.
	Start int64 `protobuf:"varint,1,opt,name=start,proto3" json:"start,omitempty"`
	// The end of the coding sequence on this annotation's reference sequence,
	// 0-based exclusive. Note that this position is relative to the reference
	// start, and *not* the containing annotation start.
	End int64 `protobuf:"varint,2,opt,name=end,proto3" json:"end,omitempty"`
	// contains filtered or unexported fields
}

func (*Transcript_CodingSequence) Descriptor deprecated

func (*Transcript_CodingSequence) Descriptor() ([]byte, []int)

Deprecated: Use Transcript_CodingSequence.ProtoReflect.Descriptor instead.

func (*Transcript_CodingSequence) GetEnd

func (x *Transcript_CodingSequence) GetEnd() int64

func (*Transcript_CodingSequence) GetStart

func (x *Transcript_CodingSequence) GetStart() int64

func (*Transcript_CodingSequence) ProtoMessage

func (*Transcript_CodingSequence) ProtoMessage()

func (*Transcript_CodingSequence) ProtoReflect

func (*Transcript_CodingSequence) Reset

func (x *Transcript_CodingSequence) Reset()

func (*Transcript_CodingSequence) String

func (x *Transcript_CodingSequence) String() string

type Transcript_Exon

type Transcript_Exon struct {

	// The start position of the exon on this annotation's reference sequence,
	// 0-based inclusive. Note that this is relative to the reference start, and
	// **not** the containing annotation start.
	Start int64 `protobuf:"varint,1,opt,name=start,proto3" json:"start,omitempty"`
	// The end position of the exon on this annotation's reference sequence,
	// 0-based exclusive. Note that this is relative to the reference start, and
	// *not* the containing annotation start.
	End int64 `protobuf:"varint,2,opt,name=end,proto3" json:"end,omitempty"`
	// The frame of this exon. Contains a value of 0, 1, or 2, which indicates
	// the offset of the first coding base of the exon within the reading frame
	// of the coding DNA sequence, if any. This field is dependent on the
	// strandedness of this annotation (see
	// [Annotation.reverse_strand][google.genomics.v1.Annotation.reverse_strand]).
	// For forward stranded annotations, this offset is relative to the
	// [exon.start][google.genomics.v1.Transcript.Exon.start]. For reverse
	// strand annotations, this offset is relative to the
	// [exon.end][google.genomics.v1.Transcript.Exon.end] `- 1`.
	//
	// Unset if this exon does not intersect the coding sequence. Upon creation
	// of a transcript, the frame must be populated for all or none of the
	// coding exons.
	Frame *wrapperspb.Int32Value `protobuf:"bytes,3,opt,name=frame,proto3" json:"frame,omitempty"`
	// contains filtered or unexported fields
}

func (*Transcript_Exon) Descriptor deprecated

func (*Transcript_Exon) Descriptor() ([]byte, []int)

Deprecated: Use Transcript_Exon.ProtoReflect.Descriptor instead.

func (*Transcript_Exon) GetEnd

func (x *Transcript_Exon) GetEnd() int64

func (*Transcript_Exon) GetFrame

func (x *Transcript_Exon) GetFrame() *wrapperspb.Int32Value

func (*Transcript_Exon) GetStart

func (x *Transcript_Exon) GetStart() int64

func (*Transcript_Exon) ProtoMessage

func (*Transcript_Exon) ProtoMessage()

func (*Transcript_Exon) ProtoReflect

func (x *Transcript_Exon) ProtoReflect() protoreflect.Message

func (*Transcript_Exon) Reset

func (x *Transcript_Exon) Reset()

func (*Transcript_Exon) String

func (x *Transcript_Exon) String() string

type UndeleteDatasetRequest

type UndeleteDatasetRequest struct {

	// The ID of the dataset to be undeleted.
	DatasetId string `protobuf:"bytes,1,opt,name=dataset_id,json=datasetId,proto3" json:"dataset_id,omitempty"`
	// contains filtered or unexported fields
}

func (*UndeleteDatasetRequest) Descriptor deprecated

func (*UndeleteDatasetRequest) Descriptor() ([]byte, []int)

Deprecated: Use UndeleteDatasetRequest.ProtoReflect.Descriptor instead.

func (*UndeleteDatasetRequest) GetDatasetId

func (x *UndeleteDatasetRequest) GetDatasetId() string

func (*UndeleteDatasetRequest) ProtoMessage

func (*UndeleteDatasetRequest) ProtoMessage()

func (*UndeleteDatasetRequest) ProtoReflect

func (x *UndeleteDatasetRequest) ProtoReflect() protoreflect.Message

func (*UndeleteDatasetRequest) Reset

func (x *UndeleteDatasetRequest) Reset()

func (*UndeleteDatasetRequest) String

func (x *UndeleteDatasetRequest) String() string

type UnimplementedAnnotationServiceV1Server

type UnimplementedAnnotationServiceV1Server struct {
}

UnimplementedAnnotationServiceV1Server can be embedded to have forward compatible implementations.

func (*UnimplementedAnnotationServiceV1Server) BatchCreateAnnotations

func (*UnimplementedAnnotationServiceV1Server) CreateAnnotation

func (*UnimplementedAnnotationServiceV1Server) CreateAnnotationSet

func (*UnimplementedAnnotationServiceV1Server) DeleteAnnotation

func (*UnimplementedAnnotationServiceV1Server) DeleteAnnotationSet

func (*UnimplementedAnnotationServiceV1Server) GetAnnotation

func (*UnimplementedAnnotationServiceV1Server) GetAnnotationSet

func (*UnimplementedAnnotationServiceV1Server) SearchAnnotationSets

func (*UnimplementedAnnotationServiceV1Server) SearchAnnotations

func (*UnimplementedAnnotationServiceV1Server) UpdateAnnotation

func (*UnimplementedAnnotationServiceV1Server) UpdateAnnotationSet

type UnimplementedDatasetServiceV1Server

type UnimplementedDatasetServiceV1Server struct {
}

UnimplementedDatasetServiceV1Server can be embedded to have forward compatible implementations.

func (*UnimplementedDatasetServiceV1Server) CreateDataset

func (*UnimplementedDatasetServiceV1Server) DeleteDataset

func (*UnimplementedDatasetServiceV1Server) GetDataset

func (*UnimplementedDatasetServiceV1Server) GetIamPolicy

func (*UnimplementedDatasetServiceV1Server) ListDatasets

func (*UnimplementedDatasetServiceV1Server) SetIamPolicy

func (*UnimplementedDatasetServiceV1Server) TestIamPermissions

func (*UnimplementedDatasetServiceV1Server) UndeleteDataset

func (*UnimplementedDatasetServiceV1Server) UpdateDataset

type UnimplementedReadServiceV1Server

type UnimplementedReadServiceV1Server struct {
}

UnimplementedReadServiceV1Server can be embedded to have forward compatible implementations.

func (*UnimplementedReadServiceV1Server) DeleteReadGroupSet

func (*UnimplementedReadServiceV1Server) ExportReadGroupSet

func (*UnimplementedReadServiceV1Server) GetReadGroupSet

func (*UnimplementedReadServiceV1Server) ImportReadGroupSets

func (*UnimplementedReadServiceV1Server) ListCoverageBuckets

func (*UnimplementedReadServiceV1Server) SearchReadGroupSets

func (*UnimplementedReadServiceV1Server) SearchReads

func (*UnimplementedReadServiceV1Server) UpdateReadGroupSet

type UnimplementedReferenceServiceV1Server

type UnimplementedReferenceServiceV1Server struct {
}

UnimplementedReferenceServiceV1Server can be embedded to have forward compatible implementations.

func (*UnimplementedReferenceServiceV1Server) GetReference

func (*UnimplementedReferenceServiceV1Server) GetReferenceSet

func (*UnimplementedReferenceServiceV1Server) ListBases

func (*UnimplementedReferenceServiceV1Server) SearchReferenceSets

func (*UnimplementedReferenceServiceV1Server) SearchReferences

type UnimplementedStreamingReadServiceServer

type UnimplementedStreamingReadServiceServer struct {
}

UnimplementedStreamingReadServiceServer can be embedded to have forward compatible implementations.

func (*UnimplementedStreamingReadServiceServer) StreamReads

type UnimplementedStreamingVariantServiceServer

type UnimplementedStreamingVariantServiceServer struct {
}

UnimplementedStreamingVariantServiceServer can be embedded to have forward compatible implementations.

type UnimplementedVariantServiceV1Server

type UnimplementedVariantServiceV1Server struct {
}

UnimplementedVariantServiceV1Server can be embedded to have forward compatible implementations.

func (*UnimplementedVariantServiceV1Server) CreateCallSet

func (*UnimplementedVariantServiceV1Server) CreateVariant

func (*UnimplementedVariantServiceV1Server) CreateVariantSet

func (*UnimplementedVariantServiceV1Server) DeleteCallSet

func (*UnimplementedVariantServiceV1Server) DeleteVariant

func (*UnimplementedVariantServiceV1Server) DeleteVariantSet

func (*UnimplementedVariantServiceV1Server) ExportVariantSet

func (*UnimplementedVariantServiceV1Server) GetCallSet

func (*UnimplementedVariantServiceV1Server) GetVariant

func (*UnimplementedVariantServiceV1Server) GetVariantSet

func (*UnimplementedVariantServiceV1Server) ImportVariants

func (*UnimplementedVariantServiceV1Server) MergeVariants

func (*UnimplementedVariantServiceV1Server) SearchCallSets

func (*UnimplementedVariantServiceV1Server) SearchVariantSets

func (*UnimplementedVariantServiceV1Server) SearchVariants

func (*UnimplementedVariantServiceV1Server) UpdateCallSet

func (*UnimplementedVariantServiceV1Server) UpdateVariant

func (*UnimplementedVariantServiceV1Server) UpdateVariantSet

type UpdateAnnotationRequest

type UpdateAnnotationRequest struct {

	// The ID of the annotation to be updated.
	AnnotationId string `protobuf:"bytes,1,opt,name=annotation_id,json=annotationId,proto3" json:"annotation_id,omitempty"`
	// The new annotation.
	Annotation *Annotation `protobuf:"bytes,2,opt,name=annotation,proto3" json:"annotation,omitempty"`
	// An optional mask specifying which fields to update. Mutable fields are
	// [name][google.genomics.v1.Annotation.name],
	// [variant][google.genomics.v1.Annotation.variant],
	// [transcript][google.genomics.v1.Annotation.transcript], and
	// [info][google.genomics.v1.Annotation.info]. If unspecified, all mutable
	// fields will be updated.
	UpdateMask *fieldmaskpb.FieldMask `protobuf:"bytes,3,opt,name=update_mask,json=updateMask,proto3" json:"update_mask,omitempty"`
	// contains filtered or unexported fields
}

func (*UpdateAnnotationRequest) Descriptor deprecated

func (*UpdateAnnotationRequest) Descriptor() ([]byte, []int)

Deprecated: Use UpdateAnnotationRequest.ProtoReflect.Descriptor instead.

func (*UpdateAnnotationRequest) GetAnnotation

func (x *UpdateAnnotationRequest) GetAnnotation() *Annotation

func (*UpdateAnnotationRequest) GetAnnotationId

func (x *UpdateAnnotationRequest) GetAnnotationId() string

func (*UpdateAnnotationRequest) GetUpdateMask

func (x *UpdateAnnotationRequest) GetUpdateMask() *fieldmaskpb.FieldMask

func (*UpdateAnnotationRequest) ProtoMessage

func (*UpdateAnnotationRequest) ProtoMessage()

func (*UpdateAnnotationRequest) ProtoReflect

func (x *UpdateAnnotationRequest) ProtoReflect() protoreflect.Message

func (*UpdateAnnotationRequest) Reset

func (x *UpdateAnnotationRequest) Reset()

func (*UpdateAnnotationRequest) String

func (x *UpdateAnnotationRequest) String() string

type UpdateAnnotationSetRequest

type UpdateAnnotationSetRequest struct {

	// The ID of the annotation set to be updated.
	AnnotationSetId string `protobuf:"bytes,1,opt,name=annotation_set_id,json=annotationSetId,proto3" json:"annotation_set_id,omitempty"`
	// The new annotation set.
	AnnotationSet *AnnotationSet `protobuf:"bytes,2,opt,name=annotation_set,json=annotationSet,proto3" json:"annotation_set,omitempty"`
	// An optional mask specifying which fields to update. Mutable fields are
	// [name][google.genomics.v1.AnnotationSet.name],
	// [source_uri][google.genomics.v1.AnnotationSet.source_uri], and
	// [info][google.genomics.v1.AnnotationSet.info]. If unspecified, all
	// mutable fields will be updated.
	UpdateMask *fieldmaskpb.FieldMask `protobuf:"bytes,3,opt,name=update_mask,json=updateMask,proto3" json:"update_mask,omitempty"`
	// contains filtered or unexported fields
}

func (*UpdateAnnotationSetRequest) Descriptor deprecated

func (*UpdateAnnotationSetRequest) Descriptor() ([]byte, []int)

Deprecated: Use UpdateAnnotationSetRequest.ProtoReflect.Descriptor instead.

func (*UpdateAnnotationSetRequest) GetAnnotationSet

func (x *UpdateAnnotationSetRequest) GetAnnotationSet() *AnnotationSet

func (*UpdateAnnotationSetRequest) GetAnnotationSetId

func (x *UpdateAnnotationSetRequest) GetAnnotationSetId() string

func (*UpdateAnnotationSetRequest) GetUpdateMask

func (x *UpdateAnnotationSetRequest) GetUpdateMask() *fieldmaskpb.FieldMask

func (*UpdateAnnotationSetRequest) ProtoMessage

func (*UpdateAnnotationSetRequest) ProtoMessage()

func (*UpdateAnnotationSetRequest) ProtoReflect

func (*UpdateAnnotationSetRequest) Reset

func (x *UpdateAnnotationSetRequest) Reset()

func (*UpdateAnnotationSetRequest) String

func (x *UpdateAnnotationSetRequest) String() string

type UpdateCallSetRequest

type UpdateCallSetRequest struct {

	// The ID of the call set to be updated.
	CallSetId string `protobuf:"bytes,1,opt,name=call_set_id,json=callSetId,proto3" json:"call_set_id,omitempty"`
	// The new call set data.
	CallSet *CallSet `protobuf:"bytes,2,opt,name=call_set,json=callSet,proto3" json:"call_set,omitempty"`
	// An optional mask specifying which fields to update. At this time, the only
	// mutable field is [name][google.genomics.v1.CallSet.name]. The only
	// acceptable value is "name". If unspecified, all mutable fields will be
	// updated.
	UpdateMask *fieldmaskpb.FieldMask `protobuf:"bytes,3,opt,name=update_mask,json=updateMask,proto3" json:"update_mask,omitempty"`
	// contains filtered or unexported fields
}

func (*UpdateCallSetRequest) Descriptor deprecated

func (*UpdateCallSetRequest) Descriptor() ([]byte, []int)

Deprecated: Use UpdateCallSetRequest.ProtoReflect.Descriptor instead.

func (*UpdateCallSetRequest) GetCallSet

func (x *UpdateCallSetRequest) GetCallSet() *CallSet

func (*UpdateCallSetRequest) GetCallSetId

func (x *UpdateCallSetRequest) GetCallSetId() string

func (*UpdateCallSetRequest) GetUpdateMask

func (x *UpdateCallSetRequest) GetUpdateMask() *fieldmaskpb.FieldMask

func (*UpdateCallSetRequest) ProtoMessage

func (*UpdateCallSetRequest) ProtoMessage()

func (*UpdateCallSetRequest) ProtoReflect

func (x *UpdateCallSetRequest) ProtoReflect() protoreflect.Message

func (*UpdateCallSetRequest) Reset

func (x *UpdateCallSetRequest) Reset()

func (*UpdateCallSetRequest) String

func (x *UpdateCallSetRequest) String() string

type UpdateDatasetRequest

type UpdateDatasetRequest struct {

	// The ID of the dataset to be updated.
	DatasetId string `protobuf:"bytes,1,opt,name=dataset_id,json=datasetId,proto3" json:"dataset_id,omitempty"`
	// The new dataset data.
	Dataset *Dataset `protobuf:"bytes,2,opt,name=dataset,proto3" json:"dataset,omitempty"`
	// An optional mask specifying which fields to update. At this time, the only
	// mutable field is [name][google.genomics.v1.Dataset.name]. The only
	// acceptable value is "name". If unspecified, all mutable fields will be
	// updated.
	UpdateMask *fieldmaskpb.FieldMask `protobuf:"bytes,3,opt,name=update_mask,json=updateMask,proto3" json:"update_mask,omitempty"`
	// contains filtered or unexported fields
}

func (*UpdateDatasetRequest) Descriptor deprecated

func (*UpdateDatasetRequest) Descriptor() ([]byte, []int)

Deprecated: Use UpdateDatasetRequest.ProtoReflect.Descriptor instead.

func (*UpdateDatasetRequest) GetDataset

func (x *UpdateDatasetRequest) GetDataset() *Dataset

func (*UpdateDatasetRequest) GetDatasetId

func (x *UpdateDatasetRequest) GetDatasetId() string

func (*UpdateDatasetRequest) GetUpdateMask

func (x *UpdateDatasetRequest) GetUpdateMask() *fieldmaskpb.FieldMask

func (*UpdateDatasetRequest) ProtoMessage

func (*UpdateDatasetRequest) ProtoMessage()

func (*UpdateDatasetRequest) ProtoReflect

func (x *UpdateDatasetRequest) ProtoReflect() protoreflect.Message

func (*UpdateDatasetRequest) Reset

func (x *UpdateDatasetRequest) Reset()

func (*UpdateDatasetRequest) String

func (x *UpdateDatasetRequest) String() string

type UpdateReadGroupSetRequest

type UpdateReadGroupSetRequest struct {

	// The ID of the read group set to be updated. The caller must have WRITE
	// permissions to the dataset associated with this read group set.
	ReadGroupSetId string `protobuf:"bytes,1,opt,name=read_group_set_id,json=readGroupSetId,proto3" json:"read_group_set_id,omitempty"`
	// The new read group set data. See `updateMask` for details on mutability of
	// fields.
	ReadGroupSet *ReadGroupSet `protobuf:"bytes,2,opt,name=read_group_set,json=readGroupSet,proto3" json:"read_group_set,omitempty"`
	// An optional mask specifying which fields to update. Supported fields:
	//
	// * [name][google.genomics.v1.ReadGroupSet.name].
	// * [referenceSetId][google.genomics.v1.ReadGroupSet.reference_set_id].
	//
	// Leaving `updateMask` unset is equivalent to specifying all mutable
	// fields.
	UpdateMask *fieldmaskpb.FieldMask `protobuf:"bytes,3,opt,name=update_mask,json=updateMask,proto3" json:"update_mask,omitempty"`
	// contains filtered or unexported fields
}

func (*UpdateReadGroupSetRequest) Descriptor deprecated

func (*UpdateReadGroupSetRequest) Descriptor() ([]byte, []int)

Deprecated: Use UpdateReadGroupSetRequest.ProtoReflect.Descriptor instead.

func (*UpdateReadGroupSetRequest) GetReadGroupSet

func (x *UpdateReadGroupSetRequest) GetReadGroupSet() *ReadGroupSet

func (*UpdateReadGroupSetRequest) GetReadGroupSetId

func (x *UpdateReadGroupSetRequest) GetReadGroupSetId() string

func (*UpdateReadGroupSetRequest) GetUpdateMask

func (x *UpdateReadGroupSetRequest) GetUpdateMask() *fieldmaskpb.FieldMask

func (*UpdateReadGroupSetRequest) ProtoMessage

func (*UpdateReadGroupSetRequest) ProtoMessage()

func (*UpdateReadGroupSetRequest) ProtoReflect

func (*UpdateReadGroupSetRequest) Reset

func (x *UpdateReadGroupSetRequest) Reset()

func (*UpdateReadGroupSetRequest) String

func (x *UpdateReadGroupSetRequest) String() string

type UpdateVariantRequest

type UpdateVariantRequest struct {

	// The ID of the variant to be updated.
	VariantId string `protobuf:"bytes,1,opt,name=variant_id,json=variantId,proto3" json:"variant_id,omitempty"`
	// The new variant data.
	Variant *Variant `protobuf:"bytes,2,opt,name=variant,proto3" json:"variant,omitempty"`
	// An optional mask specifying which fields to update. At this time, mutable
	// fields are [names][google.genomics.v1.Variant.names] and
	// [info][google.genomics.v1.Variant.info]. Acceptable values are "names" and
	// "info". If unspecified, all mutable fields will be updated.
	UpdateMask *fieldmaskpb.FieldMask `protobuf:"bytes,3,opt,name=update_mask,json=updateMask,proto3" json:"update_mask,omitempty"`
	// contains filtered or unexported fields
}

func (*UpdateVariantRequest) Descriptor deprecated

func (*UpdateVariantRequest) Descriptor() ([]byte, []int)

Deprecated: Use UpdateVariantRequest.ProtoReflect.Descriptor instead.

func (*UpdateVariantRequest) GetUpdateMask

func (x *UpdateVariantRequest) GetUpdateMask() *fieldmaskpb.FieldMask

func (*UpdateVariantRequest) GetVariant

func (x *UpdateVariantRequest) GetVariant() *Variant

func (*UpdateVariantRequest) GetVariantId

func (x *UpdateVariantRequest) GetVariantId() string

func (*UpdateVariantRequest) ProtoMessage

func (*UpdateVariantRequest) ProtoMessage()

func (*UpdateVariantRequest) ProtoReflect

func (x *UpdateVariantRequest) ProtoReflect() protoreflect.Message

func (*UpdateVariantRequest) Reset

func (x *UpdateVariantRequest) Reset()

func (*UpdateVariantRequest) String

func (x *UpdateVariantRequest) String() string

type UpdateVariantSetRequest

type UpdateVariantSetRequest struct {

	// The ID of the variant to be updated (must already exist).
	VariantSetId string `protobuf:"bytes,1,opt,name=variant_set_id,json=variantSetId,proto3" json:"variant_set_id,omitempty"`
	// The new variant data. Only the variant_set.metadata will be considered
	// for update.
	VariantSet *VariantSet `protobuf:"bytes,2,opt,name=variant_set,json=variantSet,proto3" json:"variant_set,omitempty"`
	// An optional mask specifying which fields to update. Supported fields:
	//
	// * [metadata][google.genomics.v1.VariantSet.metadata].
	// * [name][google.genomics.v1.VariantSet.name].
	// * [description][google.genomics.v1.VariantSet.description].
	//
	// Leaving `updateMask` unset is equivalent to specifying all mutable
	// fields.
	UpdateMask *fieldmaskpb.FieldMask `protobuf:"bytes,5,opt,name=update_mask,json=updateMask,proto3" json:"update_mask,omitempty"`
	// contains filtered or unexported fields
}

func (*UpdateVariantSetRequest) Descriptor deprecated

func (*UpdateVariantSetRequest) Descriptor() ([]byte, []int)

Deprecated: Use UpdateVariantSetRequest.ProtoReflect.Descriptor instead.

func (*UpdateVariantSetRequest) GetUpdateMask

func (x *UpdateVariantSetRequest) GetUpdateMask() *fieldmaskpb.FieldMask

func (*UpdateVariantSetRequest) GetVariantSet

func (x *UpdateVariantSetRequest) GetVariantSet() *VariantSet

func (*UpdateVariantSetRequest) GetVariantSetId

func (x *UpdateVariantSetRequest) GetVariantSetId() string

func (*UpdateVariantSetRequest) ProtoMessage

func (*UpdateVariantSetRequest) ProtoMessage()

func (*UpdateVariantSetRequest) ProtoReflect

func (x *UpdateVariantSetRequest) ProtoReflect() protoreflect.Message

func (*UpdateVariantSetRequest) Reset

func (x *UpdateVariantSetRequest) Reset()

func (*UpdateVariantSetRequest) String

func (x *UpdateVariantSetRequest) String() string

type Variant

type Variant struct {

	// The ID of the variant set this variant belongs to.
	VariantSetId string `protobuf:"bytes,15,opt,name=variant_set_id,json=variantSetId,proto3" json:"variant_set_id,omitempty"`
	// The server-generated variant ID, unique across all variants.
	Id string `protobuf:"bytes,2,opt,name=id,proto3" json:"id,omitempty"`
	// Names for the variant, for example a RefSNP ID.
	Names []string `protobuf:"bytes,3,rep,name=names,proto3" json:"names,omitempty"`
	// The date this variant was created, in milliseconds from the epoch.
	Created int64 `protobuf:"varint,12,opt,name=created,proto3" json:"created,omitempty"`
	// The reference on which this variant occurs.
	// (such as `chr20` or `X`)
	ReferenceName string `protobuf:"bytes,14,opt,name=reference_name,json=referenceName,proto3" json:"reference_name,omitempty"`
	// The position at which this variant occurs (0-based).
	// This corresponds to the first base of the string of reference bases.
	Start int64 `protobuf:"varint,16,opt,name=start,proto3" json:"start,omitempty"`
	// The end position (0-based) of this variant. This corresponds to the first
	// base after the last base in the reference allele. So, the length of
	// the reference allele is (end - start). This is useful for variants
	// that don't explicitly give alternate bases, for example large deletions.
	End int64 `protobuf:"varint,13,opt,name=end,proto3" json:"end,omitempty"`
	// The reference bases for this variant. They start at the given
	// position.
	ReferenceBases string `protobuf:"bytes,6,opt,name=reference_bases,json=referenceBases,proto3" json:"reference_bases,omitempty"`
	// The bases that appear instead of the reference bases.
	AlternateBases []string `protobuf:"bytes,7,rep,name=alternate_bases,json=alternateBases,proto3" json:"alternate_bases,omitempty"`
	// A measure of how likely this variant is to be real.
	// A higher value is better.
	Quality float64 `protobuf:"fixed64,8,opt,name=quality,proto3" json:"quality,omitempty"`
	// A list of filters (normally quality filters) this variant has failed.
	// `PASS` indicates this variant has passed all filters.
	Filter []string `protobuf:"bytes,9,rep,name=filter,proto3" json:"filter,omitempty"`
	// A map of additional variant information. This must be of the form
	// map<string, string[]> (string key mapping to a list of string values).
	Info map[string]*structpb.ListValue `` /* 150-byte string literal not displayed */
	// The variant calls for this particular variant. Each one represents the
	// determination of genotype with respect to this variant.
	Calls []*VariantCall `protobuf:"bytes,11,rep,name=calls,proto3" json:"calls,omitempty"`
	// contains filtered or unexported fields
}

A variant represents a change in DNA sequence relative to a reference sequence. For example, a variant could represent a SNP or an insertion. Variants belong to a variant set.

For more genomics resource definitions, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)

Each of the calls on a variant represent a determination of genotype with respect to that variant. For example, a call might assign probability of 0.32 to the occurrence of a SNP named rs1234 in a sample named NA12345. A call belongs to a call set, which contains related calls typically from one sample.

func (*Variant) Descriptor deprecated

func (*Variant) Descriptor() ([]byte, []int)

Deprecated: Use Variant.ProtoReflect.Descriptor instead.

func (*Variant) GetAlternateBases

func (x *Variant) GetAlternateBases() []string

func (*Variant) GetCalls

func (x *Variant) GetCalls() []*VariantCall

func (*Variant) GetCreated

func (x *Variant) GetCreated() int64

func (*Variant) GetEnd

func (x *Variant) GetEnd() int64

func (*Variant) GetFilter

func (x *Variant) GetFilter() []string

func (*Variant) GetId

func (x *Variant) GetId() string

func (*Variant) GetInfo

func (x *Variant) GetInfo() map[string]*structpb.ListValue

func (*Variant) GetNames

func (x *Variant) GetNames() []string

func (*Variant) GetQuality

func (x *Variant) GetQuality() float64

func (*Variant) GetReferenceBases

func (x *Variant) GetReferenceBases() string

func (*Variant) GetReferenceName

func (x *Variant) GetReferenceName() string

func (*Variant) GetStart

func (x *Variant) GetStart() int64

func (*Variant) GetVariantSetId

func (x *Variant) GetVariantSetId() string

func (*Variant) ProtoMessage

func (*Variant) ProtoMessage()

func (*Variant) ProtoReflect

func (x *Variant) ProtoReflect() protoreflect.Message

func (*Variant) Reset

func (x *Variant) Reset()

func (*Variant) String

func (x *Variant) String() string

type VariantAnnotation

type VariantAnnotation struct {

	// Type has been adapted from ClinVar's list of variant types.
	Type VariantAnnotation_Type `protobuf:"varint,1,opt,name=type,proto3,enum=google.genomics.v1.VariantAnnotation_Type" json:"type,omitempty"`
	// Effect of the variant on the coding sequence.
	Effect VariantAnnotation_Effect `protobuf:"varint,2,opt,name=effect,proto3,enum=google.genomics.v1.VariantAnnotation_Effect" json:"effect,omitempty"`
	// The alternate allele for this variant. If multiple alternate alleles
	// exist at this location, create a separate variant for each one, as they
	// may represent distinct conditions.
	AlternateBases string `protobuf:"bytes,3,opt,name=alternate_bases,json=alternateBases,proto3" json:"alternate_bases,omitempty"`
	// Google annotation ID of the gene affected by this variant. This should
	// be provided when the variant is created.
	GeneId string `protobuf:"bytes,4,opt,name=gene_id,json=geneId,proto3" json:"gene_id,omitempty"`
	// Google annotation IDs of the transcripts affected by this variant. These
	// should be provided when the variant is created.
	TranscriptIds []string `protobuf:"bytes,5,rep,name=transcript_ids,json=transcriptIds,proto3" json:"transcript_ids,omitempty"`
	// The set of conditions associated with this variant.
	// A condition describes the way a variant influences human health.
	Conditions []*VariantAnnotation_ClinicalCondition `protobuf:"bytes,6,rep,name=conditions,proto3" json:"conditions,omitempty"`
	// Describes the clinical significance of a variant.
	// It is adapted from the ClinVar controlled vocabulary for clinical
	// significance described at:
	// http://www.ncbi.nlm.nih.gov/clinvar/docs/clinsig/
	ClinicalSignificance VariantAnnotation_ClinicalSignificance `` /* 185-byte string literal not displayed */
	// contains filtered or unexported fields
}

func (*VariantAnnotation) Descriptor deprecated

func (*VariantAnnotation) Descriptor() ([]byte, []int)

Deprecated: Use VariantAnnotation.ProtoReflect.Descriptor instead.

func (*VariantAnnotation) GetAlternateBases

func (x *VariantAnnotation) GetAlternateBases() string

func (*VariantAnnotation) GetClinicalSignificance

func (x *VariantAnnotation) GetClinicalSignificance() VariantAnnotation_ClinicalSignificance

func (*VariantAnnotation) GetConditions

func (*VariantAnnotation) GetEffect

func (*VariantAnnotation) GetGeneId

func (x *VariantAnnotation) GetGeneId() string

func (*VariantAnnotation) GetTranscriptIds

func (x *VariantAnnotation) GetTranscriptIds() []string

func (*VariantAnnotation) GetType

func (*VariantAnnotation) ProtoMessage

func (*VariantAnnotation) ProtoMessage()

func (*VariantAnnotation) ProtoReflect

func (x *VariantAnnotation) ProtoReflect() protoreflect.Message

func (*VariantAnnotation) Reset

func (x *VariantAnnotation) Reset()

func (*VariantAnnotation) String

func (x *VariantAnnotation) String() string

type VariantAnnotation_ClinicalCondition

type VariantAnnotation_ClinicalCondition struct {

	// A set of names for the condition.
	Names []string `protobuf:"bytes,1,rep,name=names,proto3" json:"names,omitempty"`
	// The set of external IDs for this condition.
	ExternalIds []*ExternalId `protobuf:"bytes,2,rep,name=external_ids,json=externalIds,proto3" json:"external_ids,omitempty"`
	// The MedGen concept id associated with this gene.
	// Search for these IDs at http://www.ncbi.nlm.nih.gov/medgen/
	ConceptId string `protobuf:"bytes,3,opt,name=concept_id,json=conceptId,proto3" json:"concept_id,omitempty"`
	// The OMIM id for this condition.
	// Search for these IDs at http://omim.org/
	OmimId string `protobuf:"bytes,4,opt,name=omim_id,json=omimId,proto3" json:"omim_id,omitempty"`
	// contains filtered or unexported fields
}

func (*VariantAnnotation_ClinicalCondition) Descriptor deprecated

func (*VariantAnnotation_ClinicalCondition) Descriptor() ([]byte, []int)

Deprecated: Use VariantAnnotation_ClinicalCondition.ProtoReflect.Descriptor instead.

func (*VariantAnnotation_ClinicalCondition) GetConceptId

func (x *VariantAnnotation_ClinicalCondition) GetConceptId() string

func (*VariantAnnotation_ClinicalCondition) GetExternalIds

func (x *VariantAnnotation_ClinicalCondition) GetExternalIds() []*ExternalId

func (*VariantAnnotation_ClinicalCondition) GetNames

func (*VariantAnnotation_ClinicalCondition) GetOmimId

func (*VariantAnnotation_ClinicalCondition) ProtoMessage

func (*VariantAnnotation_ClinicalCondition) ProtoMessage()

func (*VariantAnnotation_ClinicalCondition) ProtoReflect

func (*VariantAnnotation_ClinicalCondition) Reset

func (*VariantAnnotation_ClinicalCondition) String

type VariantAnnotation_ClinicalSignificance

type VariantAnnotation_ClinicalSignificance int32
const (
	VariantAnnotation_CLINICAL_SIGNIFICANCE_UNSPECIFIED VariantAnnotation_ClinicalSignificance = 0
	// `OTHER` should be used when no other clinical significance
	// value will suffice.
	VariantAnnotation_CLINICAL_SIGNIFICANCE_OTHER VariantAnnotation_ClinicalSignificance = 1
	VariantAnnotation_UNCERTAIN                   VariantAnnotation_ClinicalSignificance = 2
	VariantAnnotation_BENIGN                      VariantAnnotation_ClinicalSignificance = 3
	VariantAnnotation_LIKELY_BENIGN               VariantAnnotation_ClinicalSignificance = 4
	VariantAnnotation_LIKELY_PATHOGENIC           VariantAnnotation_ClinicalSignificance = 5
	VariantAnnotation_PATHOGENIC                  VariantAnnotation_ClinicalSignificance = 6
	VariantAnnotation_DRUG_RESPONSE               VariantAnnotation_ClinicalSignificance = 7
	VariantAnnotation_HISTOCOMPATIBILITY          VariantAnnotation_ClinicalSignificance = 8
	VariantAnnotation_CONFERS_SENSITIVITY         VariantAnnotation_ClinicalSignificance = 9
	VariantAnnotation_RISK_FACTOR                 VariantAnnotation_ClinicalSignificance = 10
	VariantAnnotation_ASSOCIATION                 VariantAnnotation_ClinicalSignificance = 11
	VariantAnnotation_PROTECTIVE                  VariantAnnotation_ClinicalSignificance = 12
	// `MULTIPLE_REPORTED` should be used when multiple clinical
	// signficances are reported for a variant. The original clinical
	// significance values may be provided in the `info` field.
	VariantAnnotation_MULTIPLE_REPORTED VariantAnnotation_ClinicalSignificance = 13
)

func (VariantAnnotation_ClinicalSignificance) Descriptor

func (VariantAnnotation_ClinicalSignificance) Enum

func (VariantAnnotation_ClinicalSignificance) EnumDescriptor deprecated

func (VariantAnnotation_ClinicalSignificance) EnumDescriptor() ([]byte, []int)

Deprecated: Use VariantAnnotation_ClinicalSignificance.Descriptor instead.

func (VariantAnnotation_ClinicalSignificance) Number

func (VariantAnnotation_ClinicalSignificance) String

func (VariantAnnotation_ClinicalSignificance) Type

type VariantAnnotation_Effect

type VariantAnnotation_Effect int32
const (
	VariantAnnotation_EFFECT_UNSPECIFIED VariantAnnotation_Effect = 0
	// `EFFECT_OTHER` should be used when no other Effect
	// will suffice.
	VariantAnnotation_EFFECT_OTHER VariantAnnotation_Effect = 1
	// `FRAMESHIFT` indicates a mutation in which the insertion or
	// deletion of nucleotides resulted in a frameshift change.
	VariantAnnotation_FRAMESHIFT VariantAnnotation_Effect = 2
	// `FRAME_PRESERVING_INDEL` indicates a mutation in which a
	// multiple of three nucleotides has been inserted or deleted, resulting
	// in no change to the reading frame of the coding sequence.
	VariantAnnotation_FRAME_PRESERVING_INDEL VariantAnnotation_Effect = 3
	// `SYNONYMOUS_SNP` indicates a single nucleotide polymorphism
	// mutation that results in no amino acid change.
	VariantAnnotation_SYNONYMOUS_SNP VariantAnnotation_Effect = 4
	// `NONSYNONYMOUS_SNP` indicates a single nucleotide
	// polymorphism mutation that results in an amino acid change.
	VariantAnnotation_NONSYNONYMOUS_SNP VariantAnnotation_Effect = 5
	// `STOP_GAIN` indicates a mutation that leads to the creation
	// of a stop codon at the variant site. Frameshift mutations creating
	// downstream stop codons do not count as `STOP_GAIN`.
	VariantAnnotation_STOP_GAIN VariantAnnotation_Effect = 6
	// `STOP_LOSS` indicates a mutation that eliminates a
	// stop codon at the variant site.
	VariantAnnotation_STOP_LOSS VariantAnnotation_Effect = 7
	// `SPLICE_SITE_DISRUPTION` indicates that this variant is
	// found in a splice site for the associated transcript, and alters the
	// normal splicing pattern.
	VariantAnnotation_SPLICE_SITE_DISRUPTION VariantAnnotation_Effect = 8
)

func (VariantAnnotation_Effect) Descriptor

func (VariantAnnotation_Effect) Enum

func (VariantAnnotation_Effect) EnumDescriptor deprecated

func (VariantAnnotation_Effect) EnumDescriptor() ([]byte, []int)

Deprecated: Use VariantAnnotation_Effect.Descriptor instead.

func (VariantAnnotation_Effect) Number

func (VariantAnnotation_Effect) String

func (x VariantAnnotation_Effect) String() string

func (VariantAnnotation_Effect) Type

type VariantAnnotation_Type

type VariantAnnotation_Type int32
const (
	VariantAnnotation_TYPE_UNSPECIFIED VariantAnnotation_Type = 0
	// `TYPE_OTHER` should be used when no other Type will suffice.
	// Further explanation of the variant type may be included in the
	// [info][google.genomics.v1.Annotation.info] field.
	VariantAnnotation_TYPE_OTHER VariantAnnotation_Type = 1
	// `INSERTION` indicates an insertion.
	VariantAnnotation_INSERTION VariantAnnotation_Type = 2
	// `DELETION` indicates a deletion.
	VariantAnnotation_DELETION VariantAnnotation_Type = 3
	// `SUBSTITUTION` indicates a block substitution of
	// two or more nucleotides.
	VariantAnnotation_SUBSTITUTION VariantAnnotation_Type = 4
	// `SNP` indicates a single nucleotide polymorphism.
	VariantAnnotation_SNP VariantAnnotation_Type = 5
	// `STRUCTURAL` indicates a large structural variant,
	// including chromosomal fusions, inversions, etc.
	VariantAnnotation_STRUCTURAL VariantAnnotation_Type = 6
	// `CNV` indicates a variation in copy number.
	VariantAnnotation_CNV VariantAnnotation_Type = 7
)

func (VariantAnnotation_Type) Descriptor

func (VariantAnnotation_Type) Enum

func (VariantAnnotation_Type) EnumDescriptor deprecated

func (VariantAnnotation_Type) EnumDescriptor() ([]byte, []int)

Deprecated: Use VariantAnnotation_Type.Descriptor instead.

func (VariantAnnotation_Type) Number

func (VariantAnnotation_Type) String

func (x VariantAnnotation_Type) String() string

func (VariantAnnotation_Type) Type

type VariantCall

type VariantCall struct {

	// The ID of the call set this variant call belongs to.
	CallSetId string `protobuf:"bytes,8,opt,name=call_set_id,json=callSetId,proto3" json:"call_set_id,omitempty"`
	// The name of the call set this variant call belongs to.
	CallSetName string `protobuf:"bytes,9,opt,name=call_set_name,json=callSetName,proto3" json:"call_set_name,omitempty"`
	// The genotype of this variant call. Each value represents either the value
	// of the `referenceBases` field or a 1-based index into
	// `alternateBases`. If a variant had a `referenceBases`
	// value of `T` and an `alternateBases`
	// value of `["A", "C"]`, and the `genotype` was
	// `[2, 1]`, that would mean the call
	// represented the heterozygous value `CA` for this variant.
	// If the `genotype` was instead `[0, 1]`, the
	// represented value would be `TA`. Ordering of the
	// genotype values is important if the `phaseset` is present.
	// If a genotype is not called (that is, a `.` is present in the
	// GT string) -1 is returned.
	Genotype []int32 `protobuf:"varint,7,rep,packed,name=genotype,proto3" json:"genotype,omitempty"`
	// If this field is present, this variant call's genotype ordering implies
	// the phase of the bases and is consistent with any other variant calls in
	// the same reference sequence which have the same phaseset value.
	// When importing data from VCF, if the genotype data was phased but no
	// phase set was specified this field will be set to `*`.
	Phaseset string `protobuf:"bytes,5,opt,name=phaseset,proto3" json:"phaseset,omitempty"`
	// The genotype likelihoods for this variant call. Each array entry
	// represents how likely a specific genotype is for this call. The value
	// ordering is defined by the GL tag in the VCF spec.
	// If Phred-scaled genotype likelihood scores (PL) are available and
	// log10(P) genotype likelihood scores (GL) are not, PL scores are converted
	// to GL scores.  If both are available, PL scores are stored in `info`.
	GenotypeLikelihood []float64 `protobuf:"fixed64,6,rep,packed,name=genotype_likelihood,json=genotypeLikelihood,proto3" json:"genotype_likelihood,omitempty"`
	// A map of additional variant call information. This must be of the form
	// map<string, string[]> (string key mapping to a list of string values).
	Info map[string]*structpb.ListValue `` /* 149-byte string literal not displayed */
	// contains filtered or unexported fields
}

A call represents the determination of genotype with respect to a particular variant. It may include associated information such as quality and phasing. For example, a call might assign a probability of 0.32 to the occurrence of a SNP named rs1234 in a call set with the name NA12345.

func (*VariantCall) Descriptor deprecated

func (*VariantCall) Descriptor() ([]byte, []int)

Deprecated: Use VariantCall.ProtoReflect.Descriptor instead.

func (*VariantCall) GetCallSetId

func (x *VariantCall) GetCallSetId() string

func (*VariantCall) GetCallSetName

func (x *VariantCall) GetCallSetName() string

func (*VariantCall) GetGenotype

func (x *VariantCall) GetGenotype() []int32

func (*VariantCall) GetGenotypeLikelihood

func (x *VariantCall) GetGenotypeLikelihood() []float64

func (*VariantCall) GetInfo

func (x *VariantCall) GetInfo() map[string]*structpb.ListValue

func (*VariantCall) GetPhaseset

func (x *VariantCall) GetPhaseset() string

func (*VariantCall) ProtoMessage

func (*VariantCall) ProtoMessage()

func (*VariantCall) ProtoReflect

func (x *VariantCall) ProtoReflect() protoreflect.Message

func (*VariantCall) Reset

func (x *VariantCall) Reset()

func (*VariantCall) String

func (x *VariantCall) String() string

type VariantServiceV1Client

type VariantServiceV1Client interface {
	// Creates variant data by asynchronously importing the provided information.
	//
	// For the definitions of variant sets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	//
	// The variants for import will be merged with any existing variant that
	// matches its reference sequence, start, end, reference bases, and
	// alternative bases. If no such variant exists, a new one will be created.
	//
	// When variants are merged, the call information from the new variant
	// is added to the existing variant, and Variant info fields are merged
	// as specified in
	// [infoMergeConfig][google.genomics.v1.ImportVariantsRequest.info_merge_config].
	// As a special case, for single-sample VCF files, QUAL and FILTER fields will
	// be moved to the call level; these are sometimes interpreted in a
	// call-specific context.
	// Imported VCF headers are appended to the metadata already in a variant set.
	ImportVariants(ctx context.Context, in *ImportVariantsRequest, opts ...grpc.CallOption) (*longrunning.Operation, error)
	// Creates a new variant set.
	//
	// For the definitions of variant sets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	//
	// The provided variant set must have a valid `datasetId` set - all other
	// fields are optional. Note that the `id` field will be ignored, as this is
	// assigned by the server.
	CreateVariantSet(ctx context.Context, in *CreateVariantSetRequest, opts ...grpc.CallOption) (*VariantSet, error)
	// Exports variant set data to an external destination.
	//
	// For the definitions of variant sets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	ExportVariantSet(ctx context.Context, in *ExportVariantSetRequest, opts ...grpc.CallOption) (*longrunning.Operation, error)
	// Gets a variant set by ID.
	//
	// For the definitions of variant sets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	GetVariantSet(ctx context.Context, in *GetVariantSetRequest, opts ...grpc.CallOption) (*VariantSet, error)
	// Returns a list of all variant sets matching search criteria.
	//
	// For the definitions of variant sets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	//
	// Implements
	// [GlobalAllianceApi.searchVariantSets](https://github.com/ga4gh/schemas/blob/v0.5.1/src/main/resources/avro/variantmethods.avdl#L49).
	SearchVariantSets(ctx context.Context, in *SearchVariantSetsRequest, opts ...grpc.CallOption) (*SearchVariantSetsResponse, error)
	// Deletes a variant set including all variants, call sets, and calls within.
	// This is not reversible.
	//
	// For the definitions of variant sets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	DeleteVariantSet(ctx context.Context, in *DeleteVariantSetRequest, opts ...grpc.CallOption) (*emptypb.Empty, error)
	// Updates a variant set using patch semantics.
	//
	// For the definitions of variant sets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	UpdateVariantSet(ctx context.Context, in *UpdateVariantSetRequest, opts ...grpc.CallOption) (*VariantSet, error)
	// Gets a list of variants matching the criteria.
	//
	// For the definitions of variants and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	//
	// Implements
	// [GlobalAllianceApi.searchVariants](https://github.com/ga4gh/schemas/blob/v0.5.1/src/main/resources/avro/variantmethods.avdl#L126).
	SearchVariants(ctx context.Context, in *SearchVariantsRequest, opts ...grpc.CallOption) (*SearchVariantsResponse, error)
	// Creates a new variant.
	//
	// For the definitions of variants and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	CreateVariant(ctx context.Context, in *CreateVariantRequest, opts ...grpc.CallOption) (*Variant, error)
	// Updates a variant.
	//
	// For the definitions of variants and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	//
	// This method supports patch semantics. Returns the modified variant without
	// its calls.
	UpdateVariant(ctx context.Context, in *UpdateVariantRequest, opts ...grpc.CallOption) (*Variant, error)
	// Deletes a variant.
	//
	// For the definitions of variants and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	DeleteVariant(ctx context.Context, in *DeleteVariantRequest, opts ...grpc.CallOption) (*emptypb.Empty, error)
	// Gets a variant by ID.
	//
	// For the definitions of variants and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	GetVariant(ctx context.Context, in *GetVariantRequest, opts ...grpc.CallOption) (*Variant, error)
	// Merges the given variants with existing variants.
	//
	// For the definitions of variants and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	//
	// Each variant will be
	// merged with an existing variant that matches its reference sequence,
	// start, end, reference bases, and alternative bases. If no such variant
	// exists, a new one will be created.
	//
	// When variants are merged, the call information from the new variant
	// is added to the existing variant. Variant info fields are merged as
	// specified in the
	// [infoMergeConfig][google.genomics.v1.MergeVariantsRequest.info_merge_config]
	// field of the MergeVariantsRequest.
	//
	// Please exercise caution when using this method!  It is easy to introduce
	// mistakes in existing variants and difficult to back out of them.  For
	// example,
	// suppose you were trying to merge a new variant with an existing one and
	// both
	// variants contain calls that belong to callsets with the same callset ID.
	//
	//     // Existing variant - irrelevant fields trimmed for clarity
	//     {
	//         "variantSetId": "10473108253681171589",
	//         "referenceName": "1",
	//         "start": "10582",
	//         "referenceBases": "G",
	//         "alternateBases": [
	//             "A"
	//         ],
	//         "calls": [
	//             {
	//                 "callSetId": "10473108253681171589-0",
	//                 "callSetName": "CALLSET0",
	//                 "genotype": [
	//                     0,
	//                     1
	//                 ],
	//             }
	//         ]
	//     }
	//
	//     // New variant with conflicting call information
	//     {
	//         "variantSetId": "10473108253681171589",
	//         "referenceName": "1",
	//         "start": "10582",
	//         "referenceBases": "G",
	//         "alternateBases": [
	//             "A"
	//         ],
	//         "calls": [
	//             {
	//                 "callSetId": "10473108253681171589-0",
	//                 "callSetName": "CALLSET0",
	//                 "genotype": [
	//                     1,
	//                     1
	//                 ],
	//             }
	//         ]
	//     }
	//
	// The resulting merged variant would overwrite the existing calls with those
	// from the new variant:
	//
	//     {
	//         "variantSetId": "10473108253681171589",
	//         "referenceName": "1",
	//         "start": "10582",
	//         "referenceBases": "G",
	//         "alternateBases": [
	//             "A"
	//         ],
	//         "calls": [
	//             {
	//                 "callSetId": "10473108253681171589-0",
	//                 "callSetName": "CALLSET0",
	//                 "genotype": [
	//                     1,
	//                     1
	//                 ],
	//             }
	//         ]
	//     }
	//
	// This may be the desired outcome, but it is up to the user to determine if
	// if that is indeed the case.
	MergeVariants(ctx context.Context, in *MergeVariantsRequest, opts ...grpc.CallOption) (*emptypb.Empty, error)
	// Gets a list of call sets matching the criteria.
	//
	// For the definitions of call sets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	//
	// Implements
	// [GlobalAllianceApi.searchCallSets](https://github.com/ga4gh/schemas/blob/v0.5.1/src/main/resources/avro/variantmethods.avdl#L178).
	SearchCallSets(ctx context.Context, in *SearchCallSetsRequest, opts ...grpc.CallOption) (*SearchCallSetsResponse, error)
	// Creates a new call set.
	//
	// For the definitions of call sets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	CreateCallSet(ctx context.Context, in *CreateCallSetRequest, opts ...grpc.CallOption) (*CallSet, error)
	// Updates a call set.
	//
	// For the definitions of call sets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	//
	// This method supports patch semantics.
	UpdateCallSet(ctx context.Context, in *UpdateCallSetRequest, opts ...grpc.CallOption) (*CallSet, error)
	// Deletes a call set.
	//
	// For the definitions of call sets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	DeleteCallSet(ctx context.Context, in *DeleteCallSetRequest, opts ...grpc.CallOption) (*emptypb.Empty, error)
	// Gets a call set by ID.
	//
	// For the definitions of call sets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	GetCallSet(ctx context.Context, in *GetCallSetRequest, opts ...grpc.CallOption) (*CallSet, error)
}

VariantServiceV1Client is the client API for VariantServiceV1 service.

For semantics around ctx use and closing/ending streaming RPCs, please refer to https://godoc.org/google.golang.org/grpc#ClientConn.NewStream.

type VariantServiceV1Server

type VariantServiceV1Server interface {
	// Creates variant data by asynchronously importing the provided information.
	//
	// For the definitions of variant sets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	//
	// The variants for import will be merged with any existing variant that
	// matches its reference sequence, start, end, reference bases, and
	// alternative bases. If no such variant exists, a new one will be created.
	//
	// When variants are merged, the call information from the new variant
	// is added to the existing variant, and Variant info fields are merged
	// as specified in
	// [infoMergeConfig][google.genomics.v1.ImportVariantsRequest.info_merge_config].
	// As a special case, for single-sample VCF files, QUAL and FILTER fields will
	// be moved to the call level; these are sometimes interpreted in a
	// call-specific context.
	// Imported VCF headers are appended to the metadata already in a variant set.
	ImportVariants(context.Context, *ImportVariantsRequest) (*longrunning.Operation, error)
	// Creates a new variant set.
	//
	// For the definitions of variant sets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	//
	// The provided variant set must have a valid `datasetId` set - all other
	// fields are optional. Note that the `id` field will be ignored, as this is
	// assigned by the server.
	CreateVariantSet(context.Context, *CreateVariantSetRequest) (*VariantSet, error)
	// Exports variant set data to an external destination.
	//
	// For the definitions of variant sets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	ExportVariantSet(context.Context, *ExportVariantSetRequest) (*longrunning.Operation, error)
	// Gets a variant set by ID.
	//
	// For the definitions of variant sets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	GetVariantSet(context.Context, *GetVariantSetRequest) (*VariantSet, error)
	// Returns a list of all variant sets matching search criteria.
	//
	// For the definitions of variant sets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	//
	// Implements
	// [GlobalAllianceApi.searchVariantSets](https://github.com/ga4gh/schemas/blob/v0.5.1/src/main/resources/avro/variantmethods.avdl#L49).
	SearchVariantSets(context.Context, *SearchVariantSetsRequest) (*SearchVariantSetsResponse, error)
	// Deletes a variant set including all variants, call sets, and calls within.
	// This is not reversible.
	//
	// For the definitions of variant sets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	DeleteVariantSet(context.Context, *DeleteVariantSetRequest) (*emptypb.Empty, error)
	// Updates a variant set using patch semantics.
	//
	// For the definitions of variant sets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	UpdateVariantSet(context.Context, *UpdateVariantSetRequest) (*VariantSet, error)
	// Gets a list of variants matching the criteria.
	//
	// For the definitions of variants and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	//
	// Implements
	// [GlobalAllianceApi.searchVariants](https://github.com/ga4gh/schemas/blob/v0.5.1/src/main/resources/avro/variantmethods.avdl#L126).
	SearchVariants(context.Context, *SearchVariantsRequest) (*SearchVariantsResponse, error)
	// Creates a new variant.
	//
	// For the definitions of variants and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	CreateVariant(context.Context, *CreateVariantRequest) (*Variant, error)
	// Updates a variant.
	//
	// For the definitions of variants and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	//
	// This method supports patch semantics. Returns the modified variant without
	// its calls.
	UpdateVariant(context.Context, *UpdateVariantRequest) (*Variant, error)
	// Deletes a variant.
	//
	// For the definitions of variants and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	DeleteVariant(context.Context, *DeleteVariantRequest) (*emptypb.Empty, error)
	// Gets a variant by ID.
	//
	// For the definitions of variants and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	GetVariant(context.Context, *GetVariantRequest) (*Variant, error)
	// Merges the given variants with existing variants.
	//
	// For the definitions of variants and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	//
	// Each variant will be
	// merged with an existing variant that matches its reference sequence,
	// start, end, reference bases, and alternative bases. If no such variant
	// exists, a new one will be created.
	//
	// When variants are merged, the call information from the new variant
	// is added to the existing variant. Variant info fields are merged as
	// specified in the
	// [infoMergeConfig][google.genomics.v1.MergeVariantsRequest.info_merge_config]
	// field of the MergeVariantsRequest.
	//
	// Please exercise caution when using this method!  It is easy to introduce
	// mistakes in existing variants and difficult to back out of them.  For
	// example,
	// suppose you were trying to merge a new variant with an existing one and
	// both
	// variants contain calls that belong to callsets with the same callset ID.
	//
	//     // Existing variant - irrelevant fields trimmed for clarity
	//     {
	//         "variantSetId": "10473108253681171589",
	//         "referenceName": "1",
	//         "start": "10582",
	//         "referenceBases": "G",
	//         "alternateBases": [
	//             "A"
	//         ],
	//         "calls": [
	//             {
	//                 "callSetId": "10473108253681171589-0",
	//                 "callSetName": "CALLSET0",
	//                 "genotype": [
	//                     0,
	//                     1
	//                 ],
	//             }
	//         ]
	//     }
	//
	//     // New variant with conflicting call information
	//     {
	//         "variantSetId": "10473108253681171589",
	//         "referenceName": "1",
	//         "start": "10582",
	//         "referenceBases": "G",
	//         "alternateBases": [
	//             "A"
	//         ],
	//         "calls": [
	//             {
	//                 "callSetId": "10473108253681171589-0",
	//                 "callSetName": "CALLSET0",
	//                 "genotype": [
	//                     1,
	//                     1
	//                 ],
	//             }
	//         ]
	//     }
	//
	// The resulting merged variant would overwrite the existing calls with those
	// from the new variant:
	//
	//     {
	//         "variantSetId": "10473108253681171589",
	//         "referenceName": "1",
	//         "start": "10582",
	//         "referenceBases": "G",
	//         "alternateBases": [
	//             "A"
	//         ],
	//         "calls": [
	//             {
	//                 "callSetId": "10473108253681171589-0",
	//                 "callSetName": "CALLSET0",
	//                 "genotype": [
	//                     1,
	//                     1
	//                 ],
	//             }
	//         ]
	//     }
	//
	// This may be the desired outcome, but it is up to the user to determine if
	// if that is indeed the case.
	MergeVariants(context.Context, *MergeVariantsRequest) (*emptypb.Empty, error)
	// Gets a list of call sets matching the criteria.
	//
	// For the definitions of call sets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	//
	// Implements
	// [GlobalAllianceApi.searchCallSets](https://github.com/ga4gh/schemas/blob/v0.5.1/src/main/resources/avro/variantmethods.avdl#L178).
	SearchCallSets(context.Context, *SearchCallSetsRequest) (*SearchCallSetsResponse, error)
	// Creates a new call set.
	//
	// For the definitions of call sets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	CreateCallSet(context.Context, *CreateCallSetRequest) (*CallSet, error)
	// Updates a call set.
	//
	// For the definitions of call sets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	//
	// This method supports patch semantics.
	UpdateCallSet(context.Context, *UpdateCallSetRequest) (*CallSet, error)
	// Deletes a call set.
	//
	// For the definitions of call sets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	DeleteCallSet(context.Context, *DeleteCallSetRequest) (*emptypb.Empty, error)
	// Gets a call set by ID.
	//
	// For the definitions of call sets and other genomics resources, see
	// [Fundamentals of Google
	// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
	GetCallSet(context.Context, *GetCallSetRequest) (*CallSet, error)
}

VariantServiceV1Server is the server API for VariantServiceV1 service.

type VariantSet

type VariantSet struct {

	// The dataset to which this variant set belongs.
	DatasetId string `protobuf:"bytes,1,opt,name=dataset_id,json=datasetId,proto3" json:"dataset_id,omitempty"`
	// The server-generated variant set ID, unique across all variant sets.
	Id string `protobuf:"bytes,2,opt,name=id,proto3" json:"id,omitempty"`
	// The reference set to which the variant set is mapped. The reference set
	// describes the alignment provenance of the variant set, while the
	// `referenceBounds` describe the shape of the actual variant data. The
	// reference set's reference names are a superset of those found in the
	// `referenceBounds`.
	//
	// For example, given a variant set that is mapped to the GRCh38 reference set
	// and contains a single variant on reference 'X', `referenceBounds` would
	// contain only an entry for 'X', while the associated reference set
	// enumerates all possible references: '1', '2', 'X', 'Y', 'MT', etc.
	ReferenceSetId string `protobuf:"bytes,6,opt,name=reference_set_id,json=referenceSetId,proto3" json:"reference_set_id,omitempty"`
	// A list of all references used by the variants in a variant set
	// with associated coordinate upper bounds for each one.
	ReferenceBounds []*ReferenceBound `protobuf:"bytes,5,rep,name=reference_bounds,json=referenceBounds,proto3" json:"reference_bounds,omitempty"`
	// The metadata associated with this variant set.
	Metadata []*VariantSetMetadata `protobuf:"bytes,4,rep,name=metadata,proto3" json:"metadata,omitempty"`
	// User-specified, mutable name.
	Name string `protobuf:"bytes,7,opt,name=name,proto3" json:"name,omitempty"`
	// A textual description of this variant set.
	Description string `protobuf:"bytes,8,opt,name=description,proto3" json:"description,omitempty"`
	// contains filtered or unexported fields
}

A variant set is a collection of call sets and variants. It contains summary statistics of those contents. A variant set belongs to a dataset.

For more genomics resource definitions, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)

func (*VariantSet) Descriptor deprecated

func (*VariantSet) Descriptor() ([]byte, []int)

Deprecated: Use VariantSet.ProtoReflect.Descriptor instead.

func (*VariantSet) GetDatasetId

func (x *VariantSet) GetDatasetId() string

func (*VariantSet) GetDescription

func (x *VariantSet) GetDescription() string

func (*VariantSet) GetId

func (x *VariantSet) GetId() string

func (*VariantSet) GetMetadata

func (x *VariantSet) GetMetadata() []*VariantSetMetadata

func (*VariantSet) GetName

func (x *VariantSet) GetName() string

func (*VariantSet) GetReferenceBounds

func (x *VariantSet) GetReferenceBounds() []*ReferenceBound

func (*VariantSet) GetReferenceSetId

func (x *VariantSet) GetReferenceSetId() string

func (*VariantSet) ProtoMessage

func (*VariantSet) ProtoMessage()

func (*VariantSet) ProtoReflect

func (x *VariantSet) ProtoReflect() protoreflect.Message

func (*VariantSet) Reset

func (x *VariantSet) Reset()

func (*VariantSet) String

func (x *VariantSet) String() string

type VariantSetMetadata

type VariantSetMetadata struct {

	// The top-level key.
	Key string `protobuf:"bytes,1,opt,name=key,proto3" json:"key,omitempty"`
	// The value field for simple metadata
	Value string `protobuf:"bytes,2,opt,name=value,proto3" json:"value,omitempty"`
	// User-provided ID field, not enforced by this API.
	// Two or more pieces of structured metadata with identical
	// id and key fields are considered equivalent.
	Id string `protobuf:"bytes,4,opt,name=id,proto3" json:"id,omitempty"`
	// The type of data. Possible types include: Integer, Float,
	// Flag, Character, and String.
	Type VariantSetMetadata_Type `protobuf:"varint,5,opt,name=type,proto3,enum=google.genomics.v1.VariantSetMetadata_Type" json:"type,omitempty"`
	// The number of values that can be included in a field described by this
	// metadata.
	Number string `protobuf:"bytes,8,opt,name=number,proto3" json:"number,omitempty"`
	// A textual description of this metadata.
	Description string `protobuf:"bytes,7,opt,name=description,proto3" json:"description,omitempty"`
	// Remaining structured metadata key-value pairs. This must be of the form
	// map<string, string[]> (string key mapping to a list of string values).
	Info map[string]*structpb.ListValue `` /* 149-byte string literal not displayed */
	// contains filtered or unexported fields
}

Metadata describes a single piece of variant call metadata. These data include a top level key and either a single value string (value) or a list of key-value pairs (info.) Value and info are mutually exclusive.

func (*VariantSetMetadata) Descriptor deprecated

func (*VariantSetMetadata) Descriptor() ([]byte, []int)

Deprecated: Use VariantSetMetadata.ProtoReflect.Descriptor instead.

func (*VariantSetMetadata) GetDescription

func (x *VariantSetMetadata) GetDescription() string

func (*VariantSetMetadata) GetId

func (x *VariantSetMetadata) GetId() string

func (*VariantSetMetadata) GetInfo

func (x *VariantSetMetadata) GetInfo() map[string]*structpb.ListValue

func (*VariantSetMetadata) GetKey

func (x *VariantSetMetadata) GetKey() string

func (*VariantSetMetadata) GetNumber

func (x *VariantSetMetadata) GetNumber() string

func (*VariantSetMetadata) GetType

func (*VariantSetMetadata) GetValue

func (x *VariantSetMetadata) GetValue() string

func (*VariantSetMetadata) ProtoMessage

func (*VariantSetMetadata) ProtoMessage()

func (*VariantSetMetadata) ProtoReflect

func (x *VariantSetMetadata) ProtoReflect() protoreflect.Message

func (*VariantSetMetadata) Reset

func (x *VariantSetMetadata) Reset()

func (*VariantSetMetadata) String

func (x *VariantSetMetadata) String() string

type VariantSetMetadata_Type

type VariantSetMetadata_Type int32
const (
	VariantSetMetadata_TYPE_UNSPECIFIED VariantSetMetadata_Type = 0
	VariantSetMetadata_INTEGER          VariantSetMetadata_Type = 1
	VariantSetMetadata_FLOAT            VariantSetMetadata_Type = 2
	VariantSetMetadata_FLAG             VariantSetMetadata_Type = 3
	VariantSetMetadata_CHARACTER        VariantSetMetadata_Type = 4
	VariantSetMetadata_STRING           VariantSetMetadata_Type = 5
)

func (VariantSetMetadata_Type) Descriptor

func (VariantSetMetadata_Type) Enum

func (VariantSetMetadata_Type) EnumDescriptor deprecated

func (VariantSetMetadata_Type) EnumDescriptor() ([]byte, []int)

Deprecated: Use VariantSetMetadata_Type.Descriptor instead.

func (VariantSetMetadata_Type) Number

func (VariantSetMetadata_Type) String

func (x VariantSetMetadata_Type) String() string

func (VariantSetMetadata_Type) Type

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