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

Source: R/estimate-promoter-activity.R

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

getAbsolutePromoterActivity(
  junctionReadCounts,
  promoterAnnotation,
  log2 = TRUE,
  pseudocount = 1
)

Arguments

junctionReadCounts

Matrix of junction read counts (rows: promoters, cols: samples)
promoterAnnotation

A PromoterAnnotation object containing the intron ranges, promoter coordinates and the promoter id mapping
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

Value

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