doDE: Differential expression using Wilcoxon Ranks sum test

In wjawaid/bglab: Berthold Gottgens lab scRNA seq

Description

Differential expression

Usage

doDE(scd, group1, group2, thr = 1e-04, sdFilter = TRUE,
  colSideCols = NULL, cscCols = "NULL", minCounts = 1)

Arguments

scd	Single cell data set object
group1	Names of cells in group 1
group2	Names of cells in group 2
thr	Default 1e-4. False discovery rate threshold
sdFilter	Default TRUE. Remove genes with zero standard deviation
colSideCols	Which column to use for addtional column side colors for heatmap.
cscCols	Colours to use for the different levels
minCounts	Only include genes with more than this number of counts over all the cells used in DE.

Details

Identify differentially expressed genes using Wilcoxon Rank sum test

Value

Returns a list object

Author(s)

Wajid Jawaid

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