diffExp.test: Likelihood ratio test for zero-inflated data

In paodan/studySeu: Seurat : R toolkit for single cell genomics

Description

Identifies differentially expressed genes between two groups of cells using the LRT model proposed in Mcdavid et al, Bioinformatics, 2011

Usage

diffExp.test(object, cells.1, cells.2, genes.use = NULL,
  thresh.use = log(2), print.bar = TRUE)

Arguments

object	Seurat object
cells.1	Group 1 cells
cells.2	Group 2 cells
genes.use	Genes to test. Default is to use all genes.
thresh.use	Limit testing to genes which show, on average, at least X-fold difference (log-scale) between the two groups of cells. Increasing thresh.use speeds up the function, but can miss weaker signals.
print.bar	Print a progress bar once expression testing begins (uses pbapply to do this)

Value

Returns a p-value ranked matrix of putative differentially expressed genes.

paodan/studySeu documentation built on May 23, 2019, 3:06 p.m.