Clarification on derivation of SV length and type
olivia-gc opened this issue · comments
Hi, I am trying to understand how SURVIVOR filters and merges vcfs from different callers.
I just wanted to confirm that SURVIVOR tests multiple strategies to derive SV length depending on the type and caller.
For ex: END - POS2 (instead of END - POS) for TRAs when SVLEN is not available.
I also wanted clarification on dealing with BNDs during merge. From my understanding, SURVIVOR will type BNDs to INV or TRA.
With this, if I have vcfs for a sample that are separated by SV type, should I be merging INV vcfs from one caller with BND vcfs from another to see if there is a consensus call set between them?
Thank you very much for your help