Hi there
I used mpileup with the -B option to predict variations. To evaluate our pipeline, the same analysis has been done by an other lab and results have been validated in wet lab.
we share true positive prediction... good. But also we missed A LOT of true positive. I checked without the -B option and they are found. A lot of reads were not considered by using -B ... and it was wrong to do that
I'm wondering if you know which parameters I can play with to be less stringent.
Thanks for your time
I used mpileup with the -B option to predict variations. To evaluate our pipeline, the same analysis has been done by an other lab and results have been validated in wet lab.
we share true positive prediction... good. But also we missed A LOT of true positive. I checked without the -B option and they are found. A lot of reads were not considered by using -B ... and it was wrong to do that
I'm wondering if you know which parameters I can play with to be less stringent.
Thanks for your time
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