getAbsolutePromoterActivity: Prepare the absolute promoter activity table including the...
In dnzdmrcgl/proActivTest: Estimate Promoter Activity from RNA-Seq data

Description Usage Arguments Value See Also Examples

Prepare the absolute promoter activity table including the promoter and gene ids

1 2	getAbsolutePromoterActivity(junctionReadCounts, promoterIdMapping, log2 = TRUE, pseudocount = 1)

`junctionReadCounts`	Matrix of junction read counts (rows: promoters, cols: samples)
`promoterIdMapping`	data.frame containing id mappings between promoters and genes
`log2`	Logical indicating whether log2 read counts should be used (default: TRUE) or not
`pseudocount`	Number to be used for log2 as pseudocount if log2 is TRUE

data.frame of absolute promoter activity with promoter and gene ids

preparePromoterIdMapping for preparing the mapping between promoters and genes, calculatePromoterReadCounts and normalizePromoterReadCounts for obtaining junction read counts

## Not run: 
absolutePromoterActivity <- getAbsolutePromoterActivity(junctionReadCounts,
                                                         promoterIdMapping,
                                                         log2 = TRUE,
                                                         pseudocount = 1)

## End(Not run)