results {ABSSeq} | R Documentation

## Accessor functions for the result from a ABSDataSet

### Description

Accessor functions for the result from a ABSDataSet by given names

### Usage

    ## S4 method for signature 'ABSDataSet'
    results(object, cnames = c("Amean", "Bmean",
      "baseMean", "absD", "Variance", "rawFC", "lowFC", "foldChange", "pvalue",
      "adj.pvalue", "trimmed"))

### Arguments

`object` | a ABSDataSet
`cnames` | a vecotr of names for output, which are among: 'Amean','Bmean', log2 of mean counts for group A and B, "baseMean', estimated mean for absolute counts difference (absD), used for mu in `pnbinom` 'absD', absolute counts difference in total 'Variance', pooled Variance for two groups 'rawFC','lowFC', 'foldChange', log2 fold-change of original (Bmean-Amean), corrected by expression level and corrected by both expression level and gene-specific dispersion 'pvalue','adj.pvalue', pvalue and adjusted pvalue 'trimmed', number of trimmed outliers

### Details

This function returns the result of ABSSeq as a table or a vector depended on the given names, see `ABSSeq`

### Value

a table according to canmes.

### See Also

`ABSSeq`

### Examples

    data(simuN5)
    obj <- ABSDataSet(counts=simuN5$counts, groups=factor(simuN5$groups))
    obj <- normalFactors(obj)
    obj <- callParameter(obj)
    obj <- callDEs(obj)
    head(results(obj))

[Package ABSSeq version 1.42.0 Index]