addNewTSSOnLeaders: Add cage max peaks as new transcript start sites for each 5'...

Description Usage Arguments Value

View source: R/cage_annotations.R

Description

Add cage max peaks as new transcript start sites for each 5' leader (*) strands are not supported, since direction must be known.

Usage

1
addNewTSSOnLeaders(fiveUTRs, maxPeakPosition, removeUnused, cageMcol)

Arguments

fiveUTRs

(GRangesList) The 5' leaders or full transcript sequences

maxPeakPosition

The max peak for each 5' leader found by cage

removeUnused

logical (FALSE), if False: (standard is to set them to original annotation), If TRUE: remove leaders that did not have any cage support.

cageMcol

a logical (FALSE), if TRUE, add a meta column to the returned object with the raw CAGE counts in support for new TSS.

Value

a GRanges object of first exons


ORFik documentation built on March 27, 2021, 6 p.m.