Permutation for p-values in differential splicing analysis

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Description

Calculate permutation p-values in differential splicing analysis.

Usage

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DSpermutePval(RCS, permuteMat)

Arguments

RCS

a ReadCountSet object after running estiExonNBstat and estiGeneNBstat.

permuteMat

a permutation matrix generated by genpermuteMat.

Details

Permutation p-values are computed based on NB-statistics for comparison of the studied groups and NB-statistics from the permutation data sets.

Value

A ReadCountSet object with slots permute_NBstat_exon, permute_NBstat_gene, featureData, and featureData_gene updated.

Author(s)

Xi Wang, xi.wang@newcastle.edu.au

References

Xi Wang and Murray J. Cairns (2013). Gene Set Enrichment Analysis of RNA-Seq Data: Integrating Differential Expression and Splicing. BMC Bioinformatics, 14(Suppl 5):S16.

See Also

estiExonNBstat, estiGeneNBstat, genpermuteMat, DSpermute4GSEA

Examples

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