bic.deseq.heatmap: Draw a heatmap of counts table

In bic-mskcc/bicrnaseq: MSKCC Bioinformatics Core RNASeq

Description

Draw heatmap of either raw counts or variance stabilization transformed (?) data for all samples. Write plot to PDF file.

Draw heatmap of either raw counts or variance stabilization transformed (?) data for all samples. Write plot to PDF file.

Usage

bic.deseq.heatmap(cds, file = NULL, num.gns = 100, transform = FALSE)

bic.deseq.heatmap(cds, file = NULL, num.gns = 100, transform = FALSE)

Arguments

cds	DESeq countsDataSet object
file	PDF file to which heatmap should be saved (optional)
num.gns	Include this number of most highly expressed genes in the heatmap; Default: 100
transform	logical indicating whether to transform counts; Default: FALSE
cds	DESeq countsDataSet object
file	PDF file to which heatmap should be saved (optional)
num.gns	Include this number of most highly expressed genes in the heatmap; Default: 100
transform	logical indicating whether to transform counts; Default: FALSE

bic-mskcc/bicrnaseq documentation built on May 24, 2019, 3:04 a.m.