I posted this question in SEQanswers also but lost my thread there. I am working on CNV analysis (trying to find out CNV's which can be responsible for causing disease) for heart disease patients. I have exome seq data of about 50 patients and for CNV analysis I saw some interesting tools like VarScan, ExomeCNV etc. But all these tools need normal exome seq data also. Somehow I managed to get exome data for 7 normal individuals. My question is -> should I randomly select any 1 normal sample (for every patient) for CNV analysis or is there any way to use all these normal samples as 1 sample and then input in one of the tool along with the patients?
Best regards, Vikas