diffloop (version 1.0.2)

numLoops: Per-sample loop quantities

Description

numLoops counts number of loops for each sample based on the index of nloops and returns a data.frame

Usage

numLoops(dlo, nloops = 1:10)
## S3 method for class 'loops,numeric':
numLoops(dlo, nloops = 1:10)
## S3 method for class 'loops,missing':
numLoops(dlo, nloops = 1:10)

Arguments

dlo

A loops object

nloops

A numeric vector of counts to be considered

Value

• A data.frame

Details

This function shows the number of unique loops with at least nloops in counts. Can be used to quickly visualize relative sequencing depth between samples

Examples

# Determine what samples have loops with 1-20 counts
rda<-paste(system.file('rda',package='diffloop'),'loops.small.rda',sep='/')
load(rda)
nLoops <- numLoops(loops.small, 1:20)

# Determine what samples loops with 1-10 counts by default
nLoops <- numLoops(loops.small)