plotTVData {TransView} | R Documentation |
plotTVData returns the ordering and clustering results as internally calculated by plotTV.
## S4 method for signature 'TVResults' plotTVData(tvr)
tvr |
A TVResults object as returned by plotTV |
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.
Returns a data.frame
of the clustering results with five columns: Position, Cluster, Sample, Average_scores and Plot
Julius Muller ju-mu@alumni.ethz.ch
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)