rmchr: Remove 'chr' from GRanges seqnames

In diffloop: Identifying differential DNA loops from chromatin topology data

Description

rmchr takes a loops object or GRanges object and simply removes the 'chr' from seqnames, if is present

Usage

rmchr(dlo)

## S4 method for signature 'loops'
rmchr(dlo)

## S4 method for signature 'GRanges'
rmchr(dlo)

Arguments

dlo	A loops object or GRanges object

Details

Often times, performing functions on GRanges objects can go awry if the seqnames are systematically different. A common example of this is when some GRanges objects has the format of 'chr1' while the other has '1'. We can remove 'chr' from the first object

Value

An identical loops/GRanges object except 'chr' removed

Examples

library(GenomicRanges)
regA <- GRanges(c('1'),IRanges(c(36200000),c(36300000)))
addchr(regA)
regA
rmchr(regA)
regA

diffloop documentation built on Nov. 8, 2020, 5:48 p.m.