gsea

package

v0.0.0-...-77310ea Latest Latest Go to latest Published: Apr 24, 2017 License: MIT Imports: 9 Imported by: 0

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func Abstract(geneset string) (abstract string, err error)

func BriefDescription(geneset string) (briefdescription string, err error)

func Collection(geneset string) ([]string, error)

func CompendiumURL(geneset, compendium string) string

func ContributedBy(geneset string) (string, error)

func DatasetReference(geneset string) ([]string, error)

func Organism(geneset string) (string, error)

func PublicationURL(pubmedID string) string

func RelatedGeneSets(geneset string) ([]string, error)

func RetrieveFromGSEA(geneset, info string) (fromGSEA string, err error)

func SourcePlatform(geneset string) (string, error)

func SourcePublication(geneset string) (string, error)

Get pubmed id of source publication

func SystematicName(geneset string) (string, error)

func WriteGMT(genesets []GeneSet, filename string) error

Write genesets to GMT file following the MSigDB format.

type GeneSet struct {
	Name  string
	Url   string
	Genes []string
}

func ParseGMT(filename string) ([]GeneSet, error)

Parses a GMT file from msigdb (http://software.broadinstitute.org/gsea/downloads.jsp) and returns the gene sets found.

Path	Synopsis
example