getFlanks-methods: Function to get upstream and downstream adjecent regions to a...

In BIMSBbioinfo/genomation: Summary, annotation and visualization of genomic data

Description

Function to get upstream and downstream adjecent regions to a genomic feature such as CpG islands

Usage

getFlanks(grange,flank=2000,clean=TRUE)

## S4 method for signature 'GRanges'
getFlanks(grange, flank = 2000, clean = TRUE)

Arguments

grange	GRanges object for the feature
flank	number of basepairs for the flanking regions
clean	If set to TRUE, flanks overlapping with other main features will be trimmed, and overlapping flanks will be removed. This will remove multiple counts when other features overlap with flanks

Value

GRanges object for flanking regions

Examples

data(cpgi)
cpgi.flanks = getFlanks(cpgi)
head(cpgi.flanks)

BIMSBbioinfo/genomation documentation built on March 13, 2020, 5:28 a.m.