fix: update parameters and callsets

snakemake-workflows / dna-seq-mtb

A flavor of https://github.com/snakemake-workflows/dna-seq-varlociraptor preconfigured for molecular tumor boards

MIT License

4 stars 2 forks source link

fix: update parameters and callsets #34

Closed FelixMoelder closed 5 months ago

FelixMoelder commented 12 months ago

As we use panel data having high coverage for the mtb the preconfigured max read depth for varlociraptor preprocess was to low. To get a correct estimation the max-depth has been set to 30000 in the config.yaml.

Also considering the read position bias lead to missing variants in the past and therefore will be omitted.