tgong1

Thank you for the reply. I used varsim.py and I will try varsim_multi.py soon.

Hi @dr-ashu-geno, I didn't get reply from the author, so still have no idea why SURVIVOR reported it as INV. To me, the SV in the example I shown is...

Hi, I also found all BNDs have only AGGREGATED models. Is this what expected to see? I have used Manta for calling and svimmer for SV merging. Thank you, Tingting

Hi, No, I haven't solve the problem of BND. So I have given up the method of filtering based on FT=PASS. I'm now using the PASS_ratio for filtering. Best regards,...

@jingydz Yes, the filtering I'm using now is for SV sites only. While I have also tried on filtering BND based on GQ>40 (you have to set a threshold here),...

Hi， Thank you for the reply. I would very happy to see POSTRE can include cancer. Currently, I still included POSTRE in our workflow, while requiring concordance with other pathogenicity...

Hi Ryan, I got the same error messages like following when using samtools-1.8. Same as other users said, Lumpyexpress output a complete vcf file, although there are errors. But I...