UTR3usage


    outputs of <a rd-options="" href="/link/CPsites?package=InPAS&version=1.4.4" data-mini-rdoc="InPAS::CPsites">CPsites</a>


CPsites


    coverage for each sample, outputs of 
        <a rd-options="" href="/link/coverageFromBedGraph?package=InPAS&version=1.4.4" data-mini-rdoc="InPAS::coverageFromBedGraph">coverageFromBedGraph</a>


coverage


    is this dataset consume too much memory? 
        if it is TRUE, the coverage will be saved into tempfiles.


hugeData


    An optional <code><a rd-options="BiocParallel" href="/link/BiocParallelParam?package=InPAS&version=1.4.4&to=BiocParallel" data-mini-rdoc="BiocParallel::BiocParallelParam">BiocParallelParam</a></code> 
        instance determining the parallel back-end to be used during 
        evaluation, or a list of BiocParallelParam instances, to be applied 
        in sequence for nested calls to bplapply.


BPPARAM


    prepare data for singleSample analysis? default is FALSE


phmm


    calculate the usage of long and short form of UTR3 for the results of <a rd-options="" href="/link/CPsites?package=InPAS&version=1.4.4" data-mini-rdoc="InPAS::CPsites">CPsites</a>


 misc 

Alternative polyadenylation (APA) is one of the important
post-transcriptional regulation mechanisms which occurs in
most human genes. InPAS facilitates the discovery of novel
APA sites from RNAseq data. It leverages cleanUpdTSeq to fine
tune identified APA sites.

Jianhong Ou

InPAS

Identification of Novel alternative PolyAdenylation Sites (PAS)

UTR3usage function


    outputs of <a rd-options='' href='CPsites'>CPsites</a>



    coverage for each sample, outputs of 
        <a rd-options='' href='coverageFromBedGraph'>coverageFromBedGraph</a>



    An optional <code><a rd-options='BiocParallel' href='BiocParallelParam'>BiocParallelParam</a></code> 
        instance determining the parallel back-end to be used during 
        evaluation, or a list of BiocParallelParam instances, to be applied 
        in sequence for nested calls to bplapply.



    calculate the usage of long and short form of UTR3 for the results of <a rd-options='' href='CPsites'>CPsites</a>


UTR3usage: calculate the usage of long and short form of UTR3

Description

Usage

Arguments

Value

See Also