gx.focusedUpstreamAnalysis: Runs the workflow _Focused upstream analysis (TRANSFAC(R) and...

In genexplain/geneXplainR: An R interface for the geneXplain platform

Runs the workflow Focused upstream analysis (TRANSFAC(R) and TRANSPATH(R))

Description

Runs the workflow Focused upstream analysis (TRANSFAC(R) and TRANSPATH(R))

Usage

gx.focusedUpstreamAnalysis(inputYesSet, inputNoSet,
  species = "Human (Homo sapiens)", profile, foldEnriched = 1,
  promoterStart = -1000, promoterEnd = 100, resultFolder,
  allowBigInput = F, skipCompleted = T, wait = T, verbose = F)

Arguments

inputYesSet	yes/positive/foreground gene set
inputNoSet	no/negative/background gene set
species	species of the input track genome
profile	matrix profile
foldEnriched	filter by fold enrichment
promoterStart	first base of a promoter relative to TSS
promoterEnd	last base of a promoter relative to TSS
resultFolder	path of result folder
allowBigInput	set true to allow for large data sets
skipCompleted	skip already completed steps
wait	set true to wait for the analysis to complete
verbose	set true for more progress info

Value

the job id of the submitted task. The job id can be used to retrieve information about the status of the analysis.

genexplain/geneXplainR documentation built on Oct. 24, 2023, 8:56 a.m.