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Purity of Cancer samples
There's one question,I need do some analysis of CNVs and LOH base on sequencing data.Cancer samples always mixed normal cells,in order to get accurate data,I think we should make sure that mixing ratio by our sequencing data.Is there anyone having done this work?
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You could use CNAnorm for the copy number part of your work. See http://seqanswers.com/forums/showthread.php?t=15618 for details. I should add the disclaimer that I am one of the authors. You should ask Stefano, the author of the thread above for any technical details, since he is the main developer.
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