deepsomatic
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google
DeepSomatic is an analysis pipeline that uses a deep neural network to call somatic variants from tumor-normal and tumor-only sequencing data.
It would be great if deep somatic could output the normal sample in the VCF similar to Mutect and other somatic callers, this to ensure end-users that their somatic variants...
Hi, First of all, thank you for open sourcing DeepSomatic. Hope that it is going to be a useful tool for the community moving forward. I am unable to reproduce...
@kishwarshafin, likely not a priority at this point, but outputting normal depth (as a separate sample column) could be useful for: 1. Tools that ingest somatic VCF, e.g. Purple in...
Hi, I installed deepsomatic 1.7.0(python 3.10.12), but run failed. The log is below: 2024-09-25 13:03:51.979669: I tensorflow/core/platform/cpu_feature_guard.cc:193] This TensorFlow binary is optimized with oneAPI Deep Neural Network Library (oneDNN) to...
Hi, We have some tools that expect to see allele depths in FORMAT column (ie A,C,G,T or AU,CU,GU,TU) and TIR/TAR for indels. Would be great if there was a way...
