Seurat (version 2.0.0)

NegBinomDETest: Negative binomial test for UMI-count based data

Description

Identifies differentially expressed genes between two groups of cells using a negative binomial generalized linear model

Usage

NegBinomDETest(object, cells.1, cells.2, genes.use = NULL,
  latent.vars = NULL, print.bar = TRUE, min.cells = 3)

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

print.bar

Print a progress bar once expression testing begins (uses pbapply to do this)

min.cells

Minimum number of cells expressing the gene in at least one of the two groups

Value

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