Hi all,
  I am trying to analyze my array CGH data for copy number alteration 
states with CGHcall.  My code is as follows:

data.CGHcall <- 
read.table("aCGH_18_log2ratio.txt",header=TRUE,sep='\t',as.is=TRUE)

where this table I read in has columns: ProbeName,Chr,Start,End,and then 
a column for each sample

cghRaw <- make_cghRaw(data.CGHcall)
cgh <- preprocess(cghRaw,nchrom=22)
cgh <- normalize(cgh,method="none")
cgh <- segmentData(cgh,method="DNAcopy")
cgh <- postsegnormalize(cgh)

Everything goes well up to this point, but then I do:

cgh <- CGHcall(cgh, prior="auto", nclass=4)
[1] "changed"
EM algorithm started ...
Errore in data.frame(regions2, genord = 1:nreg2) :
   arguments imply differing number of rows: 0, 2

What kind of error could this be ? Could it be because of some problem 
of my data ? I checked and after postsegnormalize there are no NAs in 
the data... so I'm a bit lost.... anyone has had the same problem ?

thanks a lot to everybody,
Erik

-- 
Erik Dassi
PhD Student
Laboratory of Translational Genomics
CIBIO - Center for Integrative Biology
Via delle Regole, 101
38123 MATTARELLO (TN)
Italy

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