[BioC] About CLAC package

affy snp affysnp at gmail.com
Sat Nov 10 17:36:03 CET 2007


Dear list,


I was trying CLAC to analyze Affy SNP 250K array to call gain and
loss. The data set consists of 238304 rows (snp probes) and 243
columns (samples).

I tried clac.preparenormal.R() first and got an error message which is:

> NormalResult<-clac.preparenormal.R(cghlog2[,1:47], cghlog2[,48:243], Normal.Type=rep(0,196), chromosome.number=B[,1], nucleotide.position=B[,2], windowsize=5, targetFDR=0.01, chromosomeOption=FALSE)
Error in Summary.factor(c(1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L,  :
  max not meaningful for factors

Do you have any idea about this? I am new to R and bioconductor so any help
will be appreciated!

Sincerely,
       Allen



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