probeLookup: Get the PFAM and SYMBOL names for a set of Affymetrix probe...

In RGalaxy: Make an R function available in the Galaxy web platform

Description

Given a space-separated list of Affymetrix probe IDs, return the PFAM and SYMBOL names. Uses hgu95av2.db and the select method from the AnnotationDbi package.

Usage

probeLookup(probe_ids=GalaxyCharacterParam(
  required=TRUE,
  testValues="1002_f_at 1003_s_at"),
    outputfile=GalaxyOutput("probeLookup", "csv"))

Arguments

probe_ids	A space-separated list of Affymetrix probe IDs.
outputfile	The name of a .csv file where the returned output is to be written.

Details

Given one or more Affymetrix probe IDs separated by spaces, this function will return the PFAM and SYMBOL names associated with them in human. The function uses the hgu95av2.db package and the select function in AnnotationDbi.

Value

invisible(NULL)

Examples

  t <- tempfile()
  probeLookup("1002_f_at 1003_s_at", t)
  readLines(t)

RGalaxy documentation built on Nov. 8, 2020, 7:42 p.m.