frequencyPlotCalls {CGHbase} | R Documentation |
This function creates a frequency plot for aCGH profiles.
frequencyPlotCalls(x,main='Frequency Plot', gaincol='blue', losscol='red', misscol=NA, build='GRCh37', ...)
x |
An object of class |
main |
Title of plot |
gaincol |
Color to use for gains |
losscol |
Color to use for losses |
misscol |
Missings |
build |
Build of Humane Genome.Either |
... |
Arguments |
We find plotted on the x-axis the array probes sorted by chromosomal position. The vertical bars represent the frequency of gains or losses.
This function creates a plot.
Sjoerd Vosse & Mark van de Wiel
Mark A. van de Wiel, Kyung In Kim, Sjoerd J. Vosse, Wessel N. van Wieringen, Saskia M. Wilting and Bauke Ylstra. CGHcall: calling aberrations for array CGH tumor profiles. Bioinformatics, 23, 892-894.
## Not run: data(Wilting) rawcgh <- make_cghSeg(Wilting) normalized <- normalize(rawcgh) segmented <- segmentData(normalized) called <- CGHcall(segmented,cellularity= rep(0.75, 3)) frequencyPlotCalls(called) ## End(Not run)