MEDIPS.plotSaturation: Function plots the results of the MEDIPS.saturationAnalysis...

In HPCBio/MEDIPS-BioC: DNA IP-seq data analysis

Description

The results of the saturation analysis will be visualized by the function.

Usage

MEDIPS.plotSaturation(saturationObj = NULL, main="Saturation analysis")

Arguments

saturationObj	The saturation results object returned by the MEDIPS.saturationAnalysis function
main	The title of the coverage plot.

Value

The coverage plot will be visualized.

Author(s)

Lukas Chavez

Examples

library(MEDIPSData)
library(BSgenome.Hsapiens.UCSC.hg19)
bam.file.hESCs.Rep1.MeDIP = system.file("extdata", "hESCs.MeDIP.Rep1.chr22.bam", package="MEDIPSData")

sr=MEDIPS.saturation(file=bam.file.hESCs.Rep1.MeDIP, BSgenome="BSgenome.Hsapiens.UCSC.hg19", uniq=1e-3, extend=250, shift=0, window_size=100, chr.select="chr22", nit=10, nrit=1, empty_bins=TRUE, rank=FALSE)
MEDIPS.plotSaturation(saturationObj = sr, main="Saturation analysis")

HPCBio/MEDIPS-BioC documentation built on May 30, 2019, 12:44 p.m.