degVB: Distribution of the standard desviation of DE genes compared...
In lpantano/DEGreport: Report of DEG analysis

degVB

R Documentation

Distribution of the standard desviation of DE genes compared to the background

Description

Distribution of the standard desviation of DE genes compared to the background

Usage

degVB(tags, group, counts, pop = 400)

Arguments

`tags`	List of genes that are DE.
`group`	Character vector with group name for each sample in the same order than counts column names.
`counts`	matrix with counts for each samples and each gene. Should be same length than pvalues vector.
`pop`	Number of random samples taken for background comparison.

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)
degVB(row.names(res)[1:20], colData(dds)[["group"]],
  counts(dds, normalized = TRUE))

lpantano/DEGreport documentation built on Feb. 28, 2024, 12:01 a.m.