check_includes: Convert a vector of yes/no by DE method to a list.

View source: R/de_xlsx.R

check_includesR Documentation

Convert a vector of yes/no by DE method to a list.

Description

This compiles the set of possible methods to include in an all_pairwise() from a series of booleans into a simpler list and checks that the elements have some data that may be used.

Usage

check_includes(
  apr,
  basic = TRUE,
  deseq = TRUE,
  ebseq = TRUE,
  edger = TRUE,
  dream = TRUE,
  limma = TRUE,
  noiseq = TRUE
)

Arguments

apr

The result from all_pairwise()

basic

The user wants the basic analysis, let us see if we can provide it here.

deseq

The user wants DESeq2.

ebseq

The user wants EBSeq.

edger

The user wants EdgeR.

dream

The user wants the variancePartition method.

limma

The user wants limma.

noiseq

The user wants NoiSeq.

Value

List containing TRUE/FALSE for each method desired, depending on if we actually have the relevant data.


elsayed-lab/hpgltools documentation built on May 9, 2024, 5:02 a.m.