douym

> We get the following error if there is more than one read pair in a given region with the same read ID: > > `"ERROR: Failed to extract passes...

Hi @JunhuiLi1017 , Thanks for your info. That’s odd, since ReadLevel_Features_extraction.py should not have any stochastic procedures, and ReadLevel_Features_extraction.py would not give genotype predictions. Could you compare the two output...

> Hi @douym, > > Thanks for your response. > > Here are the details of the difference between 2 outputs(output1 and output2) from the same input file and script....

Hi @jekim2022 , Thanks for your question and sorry for the delayed response. While calling indels (in the "ReadLevel_Features_extraction.py") I also used baseQ-related features and mapQ-related features (for example, "mapq_p",...

> Hello. > > When i used MF in 2021, upon the genotype prediction steps, i was able to see the prediction to have such categories:- > > > cat...

> Hi, i'm encountering issue installing mosaicforecast. The following was what i've conducted but it seems conda is stuck at solving environment. Wondering how may i troubleshoot this issue? >...

> Hi, > > I have tumor only mutect2 run (with PoN) and I was looking for how to further filter possible germline variants. I found this code `MuTect2-PoN_filter.py`, and...

> Hi, > > I used DeepMosaic to detect mosaic SNVs from low-depth WGS data, because it supports low-depth samples, but DM does not call mosaic INDELs. I would like...