replace_bg {exomePeak2}R Documentation

Replace the control regions with user provided background.

Description

Replace the control regions with user provided background.

Usage

replace_bg(grl, bg, txdb)

Arguments

grl

A GRangesList of the merged peaks which the background regions are waiting to be replaced.

bg

A GRanges or GRangesList object of the user provided background.

txdb

A TxDb object that define the transcript annotation.

Value

A GRangesList object. The first portion is the exons regions that is not overlapped with annoation.

If the resulting ranges have less number and width compared with what defined in cut_off_width or cut_off_num, the exon regions of txdb will be returned as the background.

The second portion is the restructed user provided annotation with gene id annotated.


[Package exomePeak2 version 1.6.1 Index]