fasta

package

v0.0.0-...-040724e Latest Latest Go to latest Published: Jun 6, 2019 License: BSD-3-Clause, GPL-2.0, BSD-3-Clause, + 1 more Imports: 7 Imported by: 0

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Repository

github.com/antha-lang/antha

Documentation ¶

Overview ¶

Package fasta provides types to read and write FASTA format files.

Index ¶

Constants
type Reader
- func NewReader(f io.Reader, template seqio.SequenceAppender) *Reader
- func (r *Reader) Read() (seq.Sequence, error)
type Writer
- func NewWriter(w io.Writer, width int) *Writer
- func (w *Writer) Write(s seq.Sequence) (n int, err error)

Constants ¶

View Source

const (
	DefaultIDPrefix  = ">"
	DefaultSeqPrefix = ""
)

Default delimiters.

Variables ¶

This section is empty.

Functions ¶

This section is empty.

Types ¶

func NewReader ¶

func NewReader(f io.Reader, template seqio.SequenceAppender) *Reader

Returns a new fasta format reader using f. Sequences returned by the Reader are copied from the provided template.

func (*Reader) Read ¶

func (r *Reader) Read() (seq.Sequence, error)

Read a single sequence and return it and potentially an error. Note that a non-nil returned error may be associated with a valid sequence, so it is the responsibility of the caller to examine the error to determine whether the read was successful. Note that if the Reader's template type returns different non-nil error values from calls to SetName and SetDescription, a new error string will be returned on each call to Read. So to allow direct error comparison these methods should return the same error.

type Writer ¶

type Writer struct {
	IDPrefix  []byte
	SeqPrefix []byte
	Width     int
	// contains filtered or unexported fields
}

Fasta sequence format writer type.

func NewWriter ¶

func NewWriter(w io.Writer, width int) *Writer

Returns a new fasta format writer using f.

func (*Writer) Write ¶

func (w *Writer) Write(s seq.Sequence) (n int, err error)

Write a single sequence and return the number of bytes written and any error.

Source Files ¶

View all Source files

fasta.go

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