segmentData {CGHcall} | R Documentation |
A wrapper function to run existing breakpoint detection algorithms on arrayCGH data. Currently only DNAcopy is implemented.
segmentData(input, method = "DNAcopy", ...)
input |
Object of class cghRaw . |
method |
The method to be used for breakpoint detection. Currently only 'DNAcopy' is supported, which will run the segment function. |
... |
Arguments for segment . |
See segment
for details on the algorithm.
This function returns a dataframe in the same format as the input with segmented arrayCGH data.
Sjoerd Vosse & Mark van de Wiel
Venkatraman, A.S., Olshen, A.B. (2007). A faster circulary binary segmentation algorithm for the analysis of array CGH data. Bioinformatics, 23, 657-663.
data(WiltingNorm) ## Not run: segmented.data <- segmentData(WiltingNorm, alpha=0.02)