Hello all,
i run the variantCaller in germline_low_stringency mode with the default parameters
the strand bias threshold for snp Strand Bias is 0.95, everything up that value is considered strand bias
we did some calculations using Relative Strand Bias Formula
We found some cases where this filter works bad, for instance when we have FSAF:2 FSAR:1 FSRR:10 FSRF:0, the STB is 0.916 and therefore accepted as variant. Or FSAF:1 FSAR:1 FSRR:20 FSRF:20 the STB is 0.5 and therefore accepted again. So... we accept that calls???
i run the variantCaller in germline_low_stringency mode with the default parameters
the strand bias threshold for snp Strand Bias is 0.95, everything up that value is considered strand bias
we did some calculations using Relative Strand Bias Formula
We found some cases where this filter works bad, for instance when we have FSAF:2 FSAR:1 FSRR:10 FSRF:0, the STB is 0.916 and therefore accepted as variant. Or FSAF:1 FSAR:1 FSRR:20 FSRF:20 the STB is 0.5 and therefore accepted again. So... we accept that calls???
Comment