numLoops {diffloop} | R Documentation

## 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)

    ## S4 method for signature 'loops,numeric'
    numLoops(dlo, nloops = 1:10)

    ## S4 method for signature 'loops,missing'
    numLoops(dlo, nloops = 1:10)

### Arguments

`dlo` | A loops object
`nloops` | A numeric vector of counts to be considered

### 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

### Value

A data.frame

### 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)

[Package diffloop version 1.8.0 Index]