subsetLoops: Subset loops

In aryeelab/diffloop: Identifying differential DNA loops from chromatin topology data

Description

subsetLoops restricts the loops and counts matrix to only those specified by idxa, either numerically or logically

Usage

subsetLoops(dlo, idxa)

## S4 method for signature 'loops,logical'
subsetLoops(dlo, idxa)

## S4 method for signature 'loops,numeric'
subsetLoops(dlo, idxa)

Arguments

dlo	A loops object
idxa	A numeric vector or logical vector

Details

This function returns a loops object where the loops are retained only if they meet a logical criteria or are included in the numeric vector of idxa. Only the anchors that reference a loop in the subsetted loops object are retained.

Value

A loops object

Examples

# Return the first 10 loops
rda<-paste(system.file('rda',package='diffloop'),'loops.small.rda',sep='/')
load(rda)
#' ten <- subsetLoops(loops.small, 1:10)

# Subset loops with widths greater than 10000
big <- subsetLoops(loops.small, loopWidth(loops.small) >= 10000)

aryeelab/diffloop documentation built on May 12, 2019, 3:42 a.m.