insertGmtListToGeMS: Insert a GmtList object to GeMS

In bedapub/ribiosGSEA: Gene-Set Enrichment Analysis Tools in Ribios

Insert a GmtList object to GeMS

Description

Insert a GmtList object to GeMS

Usage

insertGmtListToGeMS(
  gmtList,
  geneFormat = 0,
  source = "PubMed",
  taxID = 9606,
  user = ribiosUtils::whoami(),
  subtype = "",
  domain = ""
)

Arguments

gmtList	A GmtList object defined in the BioQC package
geneFormat	Integer index of gene format. 0 stands for official human gene symbol
source	Character, source of the gene set
taxID	Integer, NCBI taxonomy ID of the species.
user	The user name
subtype	Subtype of the geneset
domain	Domain of the geneset

Value

Response code or error message returned by the GeMS API. A value of 200 indicates a successful insertion.

See Also

removeFromGeMS

Examples

## Not run: 
  testList <- list(list(name="GS_A", desc=NULL, genes=c("MAPK14", "JAK1", "EGFR")),
    list(name="GS_B", desc="gene set B", genes=c("ABCA1", "DDR1", "DDR2")),
    list(name="GS_C", desc="gene set C", genes=NULL))
  testGmt <- BioQC::GmtList(testList)
  ## insertGmtListToGeMS(testGmt, geneFormat=0, source="Test")
  ## removeFromGeMS(setName=c("GS_A", "GS_B", "GS_C"), source="Test")

## End(Not run)

bedapub/ribiosGSEA documentation built on March 30, 2023, 3:26 p.m.