getGene: Return the gene object for the given geneid.

In SuLab/mygene.R: Access MyGene.Info_ services

Description

This is a wrapper for GET query of "/gene/<geneid>" service.

Usage

getGene(geneid, fields = c("symbol", "name", "taxid", "entrezgene"), 
        ..., return.as=c("records", "text"), mygene)

Arguments

geneid	Entrez/ensembl gene id
fields	Fields to return, a list of a comma-sep string. If fields=="all", all available fields are returned.
...	Includes species as well as several other fields. View available fields by calling ?metadata. Also, see http://docs.mygene.info/en/latest/doc/annotation_service.html for complete argument details and syntax.
return.as	"records"" (list), "text" (JSON).
mygene	A MyGene object that describes how to connect to data resources. See MyGene-class. If missing, default object will be used that accesses the main MyGene.info portal. Default is recommended.

Value

returns a gene object containing the queried annotations

References

Ref: http://docs.mygene.info/en/latest/doc/annotation_service.html

See Also

getGenes query queryMany

Examples

## return the gene object for the given gene id
getGene(1017)

## customize fields
getGene(1017, fields=c("name", "symbol", "refseq"), return.as="text")

## all fields
getGene(1017, fields="all")

SuLab/mygene.R documentation built on May 9, 2019, 3:22 p.m.