Plot significance of (cor)relations of covariates VS principal components

Source: R/correlatePCs.R

Plots the significance of the (cor)relation of each covariate vs a principal component

plotPCcorrs(pccorrs, pc = 1, logp = TRUE)

Arguments

pccorrs

A data.frame object generated by correlatePCs

pc

An integer number, corresponding to the principal component of interest

logp

Logical, defaults to TRUE, displays the -log10 of the pvalue instead of the p value itself

Value

A base plot object

Examples

library(DESeq2)
dds <- makeExampleDESeqDataSet_multifac(betaSD_condition = 3, betaSD_tissue = 1)
rlt <- rlogTransformation(dds)
pcaobj <- prcomp(t(assay(rlt)))
res <- correlatePCs(pcaobj, colData(dds))
plotPCcorrs(res)