Entering edit mode
6.3 years ago
Bogdan
★
1.4k
Dear all,
I would appreciate please a piece of help and advice : when calling SV (or CNV) on TUMOR samples (that do not have GERMLINE counterparts), what strategy would you please advise :
1 -- running a SV caller on a TUMOR sample in a "germline"-mode
2 -- running a SV caller on a TUMOR sample vs a GERMLINE, where the GERMLINE can be any UNMATCHED NORMAL
3 -- running a SV caller on a TUMOR sample vs a GERMLINE, where the GERMLINE can be any COLLECTION of UNMATCHED NORMAL samples (i.e. I could merge the BAM files for many germline samples).
thanks,
bogdan