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oxydeepu 03-14-2016 08:27 AM

Dear Eric,

CNVkit worked when I used the older version of pysam. Now I have a doubt regarding running CNVkit. I have 20 samples with matched tumor and normal. Do I make reference from all normal samples and run each tumor sample or run individually? Sorry about naive question.

Thank you.


oxydeepu 03-14-2016 12:18 PM

Hi Eric,

Sorry to flood you with questions. one more thing, my files have same naming for normals across samples and it is giving me an error saying Dupicate ID. The problem is the files are write protected and huge files, so I don't want to rename or move them. Is there any way around it?

Thank you for your patience.


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