From 79b084a2c4b40f6897a9b5a70ffec33870b9eb92 Mon Sep 17 00:00:00 2001 From: Mathias Johansson Date: Wed, 2 Oct 2024 17:07:37 +0200 Subject: [PATCH] add rankscore familyid --- BALSAMIC/snakemake_rules/annotation/rankscore.rule | 3 +-- 1 file changed, 1 insertion(+), 2 deletions(-) diff --git a/BALSAMIC/snakemake_rules/annotation/rankscore.rule b/BALSAMIC/snakemake_rules/annotation/rankscore.rule index 4adcc9193..31850ffd1 100644 --- a/BALSAMIC/snakemake_rules/annotation/rankscore.rule +++ b/BALSAMIC/snakemake_rules/annotation/rankscore.rule @@ -22,8 +22,7 @@ rule genmod_score_snvs: ("Scoring annotated SNV variants using genmod for {params.case_name}") shell: """ -genmod score -r -c {input.rank_score} {input.vcf} | \ - +genmod score -i {params.case_name} -r -c {input.rank_score} {input.vcf} | \ bcftools view -o {output.vcf_clinical} -O z; tabix -p vcf -f {output.vcf_clinical};