doDESeq: Differential expression using DESeq2

In wjawaid/bglab: Berthold Gottgens lab scRNA seq

Description

Differential expression using DESeq2

Usage

doDESeq(scd, group1, group2, fdr, gene = NULL, rmPattern = NULL,
  minCounts = 1, nMinCells = ceiling(min(length(group1), length(group2))/2))

Arguments

scd	SCD
group1	First group. Query group.
group2	Second group. Reference group.
fdr	FDR
gene	Vector of genes (ENSEMBL ids) to use for DE.
rmPattern	Remove these genes
minCounts	Remove genes with raw counts less than this
nMinCells	The minimum number of cells that must have the gene expressed (more than 0 counts) for the gene to be included for differential expression.

Details

Differential expression using DESeq2

Value

List.

Author(s)

Wajid Jawaid

wjawaid/bglab documentation built on May 4, 2019, 6:33 a.m.