PCAplotter: PCAplotter my awesome function #1

In perllb/deseqAbstraction: A set of functions to make DESeq pipes more smooth

PCAplotter my awesome function #1

Description

creates PCA plot

Usage

PCAplotter(dat, ntop = 5000, color = NULL, shape = NULL,
  title = "", label = NULL)

Arguments

dat:	normalized deseq data (with varianceStablizing, rlog etc)
ntop:	how many genes to include
color:	how to group colors
shape:	how to group shapes. (by default NULL if only color by groups wanted)
title:	title of plot
label:	vector of labels for each point (optional)

Examples

vst <- varianceStabilizingTransformation(dds);
PCAplotter(dat = vst,ntop = 1000,color = colData$cellType, shape = colData$treatment,title = "PCA plot top1000 genes", label = colData$sample)

perllb/deseqAbstraction documentation built on Oct. 31, 2023, 2:13 a.m.