cluster.diffgenes: Detect cluster specific differentially expressed genes

In minzheguo/SINCERA: An R implementation of SINCERA pipeline for processing single-cell RNA-seq data.

Description

Detect cluster specific differentially expressed genes

Usage

cluster.diffgenes(object, groups = NULL, genes = NULL, method = "welch",
  do.fdr = FALSE, thresh = 0.05, ...)

Arguments

object	A sincera object
groups	The cell groups included in the differential expression analysis; if NULL, set to all groups defined in the object
genes	The set of genes included in the analysis; if NULL, set to all genes in the object
method	The method for differential test, possible values include welch - one tailed welch's t-test, wilcoxon - one-tailed wilcoxon rank sum test
do.fdr	If TRUE, do the FDR correction
thresh	The threshold for significance

Value

The update sincera object with diff test results in the difftests slot and the significant diff genes in the diffgenes slot

minzheguo/SINCERA documentation built on Feb. 3, 2021, 2:31 p.m.