Plot ChIP PCAs

PlotChIPPCAs generates PCA plots for all contrasts found in results. If consensus = TRUE, it will also generate one with all samples and all peaks.

PlotChIPPCAs(results, outpath, method, fdr.thresh = 1, fc.thresh = 0,
  consensus = TRUE)

Arguments

results	DBA object as returned by dba.analyze.
outpath	Path to directory to be used for output.
method	Method used for DiffBind analyses (e.g. DBA_DESEQ2).
fdr.thresh	Number indicating FDR threshold. Peaks greater than fdr.thresh will not be used for PCAs.
fc.thresh	Number indicating absolute log fold-change that peaks must meet to be used for the PCA.
consensus	Boolean indicating whether PCAs are for consensus peaks.