Distribution of pvalues by expression range

This function plot the p-values distribution colored by the quantiles of the average count data.

degMean(pvalues, counts)

Arguments

pvalues	pvalues of DEG analysis.
counts	Matrix with counts for each samples and each gene. row number should be the same length than pvalues vector.

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)
#> using pre-existing size factors
#> estimating dispersions
#> gene-wise dispersion estimates
#> mean-dispersion relationship
#> final dispersion estimates
#> fitting model and testing
#> -- replacing outliers and refitting for 1 genes
#> -- DESeq argument 'minReplicatesForReplace' = 7 
#> -- original counts are preserved in counts(dds)
#> estimating dispersions
#> fitting model and testing
res <- results(dds)
degMean(res[, 4], counts(dds))