degQC: Plot main figures showing p-values distribution and...

In DEGreport: Report of DEG analysis

Description

This function joins the output of degMean, degVar and degMV in a single plot. See these functions for further information.

Usage

degQC(counts, groups, object = NULL, pvalue = NULL)

Arguments

counts	Matrix with counts for each samples and each gene.
groups	Character vector with group name for each sample in the same order than counts column names.
object	DEGSet oobject.
pvalue	pvalues of DEG analysis.

Value

ggplot2 object

Examples

data(humanGender)
library(DESeq2)
idx <- c(1:10, 75:85)
dds <- DESeqDataSetFromMatrix(assays(humanGender)[[1]][1:1000, idx],
  colData(humanGender)[idx,], design=~group)
dds <- DESeq(dds)
res <- results(dds)
degQC(counts(dds, normalized=TRUE), colData(dds)[["group"]],
  pvalue = res[["pvalue"]])

DEGreport documentation built on Nov. 8, 2020, 7:23 p.m.