Hi all. I want to apply CRMAv2 + CBS to Genome Wide SNP 6.0 arrays. The segments created by CBS should have hg19 coordinates. I looked at the aroma project web site: http://www.aroma-project.org/chipTypes/GenomeWideSNP_6
The annotation files are based on na30 and hg18. I probably can create a new .ugp and .ufl file for hg19 based on the R scripts available on that page. However, there is no script for the .acs file. So, I have two questions: What is stored in these annotation files? - .ufl -- length of the fragments (?) - .ugp -- mapping from probes to genomic positions (?) - .acs -- mapping from probes to sequences (?) If my guesses above are correct, can create new .ufl and .ugp files and use the old .acs file? Thanks, Hans-Ulrich -- When reporting problems on aroma.affymetrix, make sure 1) to run the latest version of the package, 2) to report the output of sessionInfo() and traceback(), and 3) to post a complete code example. You received this message because you are subscribed to the Google Groups "aroma.affymetrix" group with website http://www.aroma-project.org/. To post to this group, send email to aroma-affymetrix@googlegroups.com To unsubscribe and other options, go to http://www.aroma-project.org/forum/
