format_DEG: write some files from the DEG results from topTable(limma)

In jmzeng1314/humanid: gene id annotation

Description

write some files from the DEG results from topTable(limma)

Usage

format_DEG(DEG, prefix = "test", logFC_cutoff = 0, pvalue_cutoff = 0,
  padjust_cutoff = 0, GOstats = F)

Arguments

DEG	DEG=topTable(fit,coef=2,adjust='BH')
prefix	The prefix for all of the output files.
logFC_cutoff	The cutoff for logFC to choose DEG, default:mean(abs(DEG$logFC)) + 2*sd(abs(DEG$logFC))
pvalue_cutoff	The cutoff for pvalue to choose DEG, default:0.05
padjust_cutoff	The cutoff for p.adjust to choose DEG, default:none

Value

write some files

Examples

#'  format_DEG(DEG)

jmzeng1314/humanid documentation built on May 19, 2019, 2:57 p.m.