searchProximalCPs {InPAS} | R Documentation |
search proximal CPsites
searchProximalCPs(CPs, curr_UTR, window_size, MINSIZE, cutEnd, search_point_START, search_point_END, two_way=FALSE)
CPs |
output of searchDistalCPs or distalAdj |
curr_UTR |
GRanges of current 3UTR |
window_size |
window size |
MINSIZE |
MINSIZE for short form |
cutEnd |
how many nucleotides should be removed from the end before search, 0.1 means 10 percent. |
search_point_START |
start point for searching |
search_point_END |
end point for searching |
two_way |
Search the proximal site from both direction or not. |
a list
Jianhong Ou
proximalAdj
, polishCPs
,
proximalAdjByPWM
, proximalAdjByCleanUpdTSeq
,
PAscore
,PAscore2