DENBTest: Perform negative binomial exact test for differential...

Description Usage Arguments Value Author(s) References See Also Examples

View source: R/DEscore.R

Description

Perform negative binomial exact test for differential expression - a modified version of nbinomTest in DESeq package.

Usage

1
DENBTest(cds)

Arguments

cds

A CountDataSet object with size factors and dispersion parameters estimated. Recommended to take the output of runDESeq.

Value

A data frame of the test results. Information contains mean expression values, NB-statistics, (log) fold-changes, p-values, and adjusted p-values.

Author(s)

Xi Wang, [email protected]

References

Anders, S. and Huber, W. (2010) Differential expression analysis for sequence count data, Genome Biol, 11, R106.

See Also

runDESeq, DENBStat4GSEA

Examples

1
2
3
4
5
6
data(RCS_example, package="SeqGSEA")
geneCounts <- getGeneCount(RCS_example)
label <- label(RCS_example)
DEG <- runDESeq(geneCounts, label)
DEGres <- DENBTest(DEG)
head(DEGres)

SeqGSEA documentation built on Nov. 17, 2017, 9:49 a.m.