[BioC] Copy number analysis

Mete Civelek mcivelek at mednet.ucla.edu
Sat Mar 17 03:28:59 CET 2012

You can try aroma.affymetrix. Information specific to SNP 6.0 is located at

-----Original Message-----
From: bioconductor-bounces at r-project.org
[mailto:bioconductor-bounces at r-project.org] On Behalf Of Raj [guest]
Sent: Friday, March 16, 2012 5:36 PM
To: bioconductor at r-project.org; drrajan22 at yahoo.com
Subject: [BioC] Copy number analysis

Dear Bioconductor community,

  I am looking for a package for Copy number analysis using CEL file that I
have obtained from Affy SNP 6.0. I have CHP files from birdseed. Now I want
to analyze my data for Copy number and Loss of heterozygosity (using B
allele frequency) and find regions of CN alterations and LOH with or without
Copy number changes. Can anyone direct me to the correct package available
for this?

 -- output of sessionInfo():

R studio

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