plotTVData {TransView}R Documentation

Summarize plotTV results

Description

plotTVData returns the ordering and clustering results as internally calculated by plotTV.

Usage

## S4 method for signature 'TVResults'
plotTVData(tvr)

Arguments

tvr

A TVResults object as returned by plotTV

Details

If k-means or manual clustering was performed, row means per cluster will be returned in a data.frame. Otherwise row means over the whole data will be returned.

Value

Returns a data.frame of the clustering results with five columns: Position, Cluster, Sample, Average_scores and Plot

Author(s)

Julius Muller ju-mu@alumni.ethz.ch

See Also

Examples


exbam<-dir(system.file("extdata", package="TransView"),full=TRUE,patt="bam$")
exls<-dir(system.file("extdata", package="TransView"),full=TRUE,patt="xls$")

exden.ctrl<-parseReads(exbam[1],verbose=0)
exden.chip<-parseReads(exbam[2],verbose=0)

peaks<-macs2gr(exls,psize=500)

cluster_res<-plotTV(exden.chip,exden.ctrl,regions=peaks,cluster=5,norm_readc=FALSE,showPlot=FALSE)
summaryTV(cluster_res)
tvdata<-plotTVData(cluster_res)



[Package TransView version 1.26.1 Index]