dispTable: Accessor function for the dispTable information in a...

In DESeq: Differential gene expression analysis based on the negative binomial distribution

Description

The dispersion table ("dispTable") is a named vector that assigns to each condition (as name) a dispersion column (as value). If nbinomTest is called to compare two conditions, say "A" and "B", DESeq looks up in the dispTable, which dispersion columns to use. In the standard case (see example), these are just the dispersions for "A" and "B", i.e., the columns disp_A and disp_B in fData(object). If the "pooled" or "blind" variance estimation is used, all conditions are assigned the same column.

Usage

dispTable(object,...)

Arguments

object	a CountDataSet
...	further argumnts are ignored

Author(s)

Simon Anders, [e-mail]

See Also

estimateDispersions, nbinomTest

Examples

   cds <- makeExampleCountDataSet()
   cds <- estimateSizeFactors( cds )
   cds <- estimateDispersions( cds )
   dispTable( cds )

DESeq documentation built on April 28, 2020, 6:37 p.m.