SelectGeneSets: Select genesets accoding to specific conditions

In Albluca/rRoma: An r implementation of ROMA

Description

Select genesets accoding to specific conditions

Usage

SelectGeneSets(RomaData, VarThr = 0.001, VarMode = "Wil",
  VarType = "Over", RatThr = NULL, RatMode = "Wil", RatType = "Over",
  MedThr = NULL, MedMode = "Wil", MedType = "Over")

Arguments

RomaData	list, the analysis returned by rRoma
VarThr	numeric between 0 and 1, the threshold PV to select significantly over- or under-disperdes genesets
VarMode	string, the test to use to select over- or under-underdisperdes genesets. Currently it can be either 'Wil' (Wilcoxon test) or 'PPV' (permutation base p-value)
VarType	string, the type of statistical difference to select. Currently it can be either 'Over' (overdispersed) or 'Under' (underdispersed)
MedThr	numeric between 0 and 1, the threshold PV to select significantly over- or under-expressed genesets
MedMode	string, the test to use to select over- or under-expressed genesets. Currently it can be either 'Wil' (Wilcoxon test) or 'PPV' (permutation base p-value)
MedType	string, the type of statistical difference to select. Currently it can be either 'Over' (overexpressed) or 'Under' (underexpressed)

Albluca/rRoma documentation built on May 5, 2019, 1:35 p.m.