estiGeneNBstat {SeqGSEA} | R Documentation

## Calculate NB-statistics quantifying differential splicing for each gene

### Description

Calculate NB-statistics quantifying differential splicing for each gene between two groups of samples compared. The results will be used for GSEA run (as DS-scores).

### Usage

    estiGeneNBstat(RCS)

### Arguments

`RCS` | a ReadCountSet object after running `estiExonNBstat`.

### Value

A ReadCountSet object with slot `featureData_gene` updated.

### Note

Please run `estiExonNBstat` before run this function.

### Author(s)

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

### References

Weichen Wang, Zhiyi Qin, Zhixing Feng, Xi Wang and Xuegong Zhang (2013). Identifying differentially spliced genes from two groups of RNA-seq samples. Gene, 518(1):164-170.

### See Also

`estiExonNBstat`

### Examples

    data(RCS_example, package="SeqGSEA")
    RCS_example <- exonTestability(RCS_example, cutoff=5)
    RCS_example <- estiExonNBstat(RCS_example)
    RCS_example <- estiGeneNBstat(RCS_example)
    head(RCS_example@featureData_gene)

[Package SeqGSEA version 1.20.0 Index]