Brundle (version 1.0.9)

jg.plotDeSeq: jg.plotDeSeq

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

# NOT RUN {
 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
 )

# }