A Snakemake workflow for calling somatic variants in tumor/normal samples. This workflow is under heavy development. A tumor-only mode will be added soon, as well as options for handling FFPE samples.
This workflow uses the dna-seq-varlociraptor workflow as a module, and configures it with reasonable defaults for running analysis in molecular tumor boards.
The usage of this workflow is described in the Snakemake Workflow Catalog.
If you use this workflow in a paper, don't forget to give credits to the authors by citing https://github.com/snakemake-workflows/dna-seq-mtb.