jg.plotDeSeqCombined: jg.plotDeSeqCombined

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

Description

Overlays the plots from the output from DESeq2 for the Brundle pipeline

Usage

jg.plotDeSeqCombined(jg.controlResultsDeseq, jg.experimentResultsDeseq,
  title.main, padjX, flip = FALSE)

Arguments

jg.controlResultsDeseq	is the result Dataframe from DESeq2 for the control conditions
jg.experimentResultsDeseq	is the result Dataframe from DESeq2 for the experimental conditions
title.main	is the plot title
padjX	is the minimum FDR to highlight as significant
flip	when set to TRUE flips the data

Examples

data(jg.controlResultsDeseq,package="Brundle")
data(jg.experimentResultsDeseq,package="Brundle")

jg.plotDeSeqCombined(as.data.frame(jg.controlResultsDeseq),
                    as.data.frame(jg.experimentResultsDeseq),
                    title.main="ER and CTCF Binding Folding changes on ER treatment",
                    p=0.01,flip=TRUE)

andrewholding/Brundle documentation built on May 10, 2019, 5:17 a.m.