seqc.diff.sleuth: seqc.diff.sleuth

In plger/RNAontheBENCH: RNAontheBENCH - Benchmark of RNAseq quantification and DEA

Description

Sleuth wrapper for the analysis of SEQC data.

Usage

seqc.diff.sleuth(folders, between.groups = 1:5, inner.groups = list(c(1, 2,
  3), c(4, 5)), do.plot = TRUE)

Arguments

folders	Folders containing the quantification and bootstraps. The folders should be named "A_1" and so on.
between.groups	A vector of integers from 1 to 5 indicating the replicates to be used for comparison across conditions. Default 1:5.
inner.groups	A list of two vectors, each containing the replicates to be used for comparison inside each condition. Default list(c(1,2,3),c(4,5)).
do.plot	Logical, whether to produce Positives plots (see posplot). Default TRUE.

Value

A list of differential expression calls.

plger/RNAontheBENCH documentation built on May 25, 2019, 8:22 a.m.