Nextflow Modules
Showing module(s) with keyword "strelka"
| Module | Kind | Keywords | Description |
|---|---|---|---|
| nf-core/bam_tumor_normal_somatic_variant_calling_strelka | Workflow | strelka variant_calling filtered_vcf | Perform variant calling on a paired tumor normal set of samples using strelka somatic mode. f1r2 output of mutect2 is run through learnreadorientationmodel to get the artifact priors. Run the input bam files through getpileupsummarries and then calculatecontamination to get the contamination and segmentation tables. Filter the mutect2 output vcf using filtermutectcalls, artifact priors and the contamination & segmentation tables for additional filtering. |