windowPerTranscript {ORFik}R Documentation

Get coverage window per transcript

Description

Get coverage window per transcript

Usage

windowPerTranscript(txdb, reads, splitIn3 = TRUE, windowSize = 100,
  fraction = "1")

Arguments

txdb

a TxDb object or a path to gtf/gff/db file.

reads

GRanges or GAlignment of reads

splitIn3

a logical(TRUE), split window in 3 (leader, cds, trailer)

windowSize

an integer (100), size of windows

fraction

info on reads (which read length, or which type (RNA seq))

Value

a data.table with columns position, score


[Package ORFik version 1.4.0 Index]