CPsites                 predict the cleavage and polyadenylation(CP)
                        site
InPAS-package           alternative polyadenylation and cleavage
                        estimations
coverageFromBedGraph    read coverage from bedGraph files
inPAS                   do estimation of alternative polyadenylation
                        and cleavage site in one step
usage4plot              prepare coverage data and fitting data for plot
utr3.hg19               3'UTR annotation for hg19 obtained from
                        utr3Annotation
utr3.mm10               3'UTR annotation for mm10 obtained from
                        utr3Annotation
utr3Annotation          extract 3'UTR from TxDb object
utr3UsageEstimation     estimation of 3'UTR usage for each region
