meanPeakLengthPlot {geneXtendeR} | R Documentation

## Produces line plots of mean (average) peak length within any genomic interval.

### Description

Makes line plots of mean peak lengths to show the average length of individual peaks within any genomic interval (e.g., 0-500 bp upstream of nearest gene for all genes throughout the genome).

### Usage

    meanPeakLengthPlot(organism, start, end, by)

### Arguments

`organism` | Object name assigned from readGFF() command.
`start` | Lower bound of upstream extension.
`end` | Upper bound of upstream extension.
`by` | Interval between consecutive extensions.

### Value

Creates mean peak length line plots.

### Examples

    library(rtracklayer)
    rat <- readGFF("ftp://ftp.ensembl.org/pub/release-84/gtf/rattus_norvegicus/Rattus_norvegicus.Rnor_6.0.84.gtf.gz")
    allpeaks <- system.file("extdata", "totalpeaksfile.txt", package="geneXtendeR")
    peaksInput(allpeaks)
    meanPeakLengthPlot(rat, 0, 10000, 500)

[Package geneXtendeR version 1.13.0 Index]