searchDistalCPs

chr.cov.merge


    joint to next 3UTR or not (used for <a rd-options="" href="/link/removeUTR3__UTR3?package=InPAS&version=1.4.4" data-mini-rdoc="InPAS::removeUTR3__UTR3">removeUTR3__UTR3</a>)


conn_next_utr3

curr_UTR

window_size


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


depth.weight


    cutoff value for coverage of long form 3UTR


long_coverage_threshold

background


    cut off background scores. see <a rd-options="" href="/link/zScoreThrethold?package=InPAS&version=1.4.4" data-mini-rdoc="InPAS::zScoreThrethold">zScoreThrethold</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)

searchDistalCPs function


    joint to next 3UTR or not (used for <a rd-options='' href='removeUTR3__UTR3'>removeUTR3__UTR3</a>)



    output of <a rd-options='' href='depthWeight'>depthWeight</a>



    cut off background scores. see <a rd-options='' href='zScoreThrethold'>zScoreThrethold</a>


searchDistalCPs: search distal CP sites

Description

Usage

Arguments

Value

See Also