filterSpanningLoops: Retain loops spanning some genomic feature

Description Usage Arguments Details Value Examples

Description

filterSpanningLoops returns a loops object where the ends of the anchors completely span one or more genomic feature (e.g. boundary)

Usage

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filterSpanningLoops(dlo, gf)

## S4 method for signature 'loops,GRanges'
filterSpanningLoops(dlo, gf)

Arguments

dlo

A loops object

gf

A GRanges object of features

Details

Rather than a simple overlap, the function by default requires a genomic locus to be completely contacints

Value

An loops object

Examples

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# Return the width for loops 
rda<-paste(system.file('rda',package='diffloop'),'loops.small.rda',sep='/')
load(rda)
w <- loopWidth(loops.small)

Bioconductor-mirror/diffloop documentation built on June 1, 2017, 7:35 a.m.