degDefault: Method to get the default table to use.

In lpantano/DEGreport: Report of DEG analysis

Method to get the default table to use.

Description

It can accept a list of new padj values matching the same dimmensions than the current vector.

Usage

degDefault(object)

degCorrect(object, fdr)

## S4 method for signature 'DEGSet'
degDefault(object)

## S4 method for signature 'DEGSet'
degCorrect(object, fdr)

Arguments

object	DEGSet
fdr	It can be fdr-stat, fdr-pvalue, vector of new padj

Author(s)

Lorena Pantano

Examples

library(DESeq2)
library(dplyr)
dds <- makeExampleDESeqDataSet(betaSD=1)
colData(dds)[["treatment"]] <- sample(colData(dds)[["condition"]], 12)
design(dds) <-  ~ condition + treatment
dds <- DESeq(dds)
res <- degComps(dds, contrast = list("treatment_B_vs_A"))

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