DPA: DPA

In MoonlightR: Identify oncogenes and tumor suppressor genes from omics data

Description

This function carries out the differential phenotypes analysis

Usage

DPA(dataType, dataFilt, dataConsortium = "TCGA", fdr.cut = 0.01,
  logFC.cut = 1, diffmean.cut = 0.25, samplesType, colDescription,
  gset, gsetFile = "gsetFile.RData")

Arguments

dataType	selected
dataFilt	obtained from getDataTCGA
dataConsortium	is TCGA or GEO, default TCGA
fdr.cut	is a threshold to filter DEGs according their p-value corrected
logFC.cut	is a threshold to filter DEGs according their logFC
diffmean.cut	diffmean.cut for DMR
samplesType	samplesType
colDescription	colDescription
gset	gset
gsetFile	gsetFile

Value

result matrix from differential phenotype analysis

Examples

dataDEGs <- DPA(dataFilt = dataFilt, dataType = "Gene expression")

MoonlightR documentation built on Nov. 8, 2020, 8:25 p.m.