Seurat (version 2.1.0)

PoissonDETest: Poisson test for UMI-count based data

Description

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

Usage

PoissonDETest(object, cells.1, cells.2, min.cells = 3, genes.use = NULL,
  latent.vars = NULL, print.bar = TRUE, assay.type = "RNA")

Arguments

object

Seurat object

cells.1

Group 1 cells

cells.2

Group 2 cells

min.cells

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

genes.use

Genes to use for test

latent.vars

Latent variables to test

print.bar

Print progress bar

assay.type

Type of assay to fetch data for (default is RNA)

Value

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

Examples

# NOT RUN {
pbmc_small
# Note, expect warnings with example dataset due to min.cells threshold.
PoissonDETest(pbmc_small, cells.1 = WhichCells(object = pbmc_small, ident = 1),
            cells.2 = WhichCells(object = pbmc_small, ident = 2))

# }