jg.plotDeSeq: jg.plotDeSeq

In Brundle: Normalisation Tools for Inter-Condition Variability of ChIP-Seq Data

Description

Plots the output from DESeq2 for the Brundle pipeline

Usage

jg.plotDeSeq(ma.df, p = 0.01, title.main = "Differential ChIP",
  log2fold = 0.5, flip = FALSE)

Arguments

ma.df	is the result Dataframe from DESeq2
p	is the minimum FDR to highlight as significant
title.main	is the plot title
log2fold	is the minimum log2 fold change for highlighted points
flip	when set to TRUE flips the data

Examples

 data(jg.experimentResultsDeseq,package="Brundle")
 jg.experimentResultsDeseq<-suppressWarnings(as.data.frame(jg.experimentResultsDeseq))
 jg.plotDeSeq(jg.experimentResultsDeseq,
  p=0.01,
  title.main="Fold-change in ER binding",
  flip=TRUE
 )

Brundle documentation built on May 2, 2019, 10:14 a.m.