Merge pull request #333 from genomic-medicine-sweden/tmb_gene_filter

feat: tmb two noisy genes filtered
genomic-medicine-sweden · Sep 21, 2023 · 3eeec27 · 3eeec27
2 parents 631d6c9 + d9f0059
commit 3eeec27
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diff --git a/config/config.yaml b/config/config.yaml
@@ -381,6 +381,7 @@ tmb:
   background_panel: ""
   db1000g_limit: 0.0001
   dp_limit: 100
+  filter_genes: "/projects/wp1/nobackup/ngs/utveckling/Twist_DNA_DATA/tmb_filter_genes.txt"
   gnomad_limit: 0.0001
   vd_limit: 10
   nr_avg_germline_snvs: 2.0

diff --git a/workflow/Snakefile b/workflow/Snakefile
@@ -322,7 +322,7 @@ use rule picard_collect_alignment_summary_metrics from qc as qc_picard_collect_a
 
 module biomarker:
     snakefile:
-        get_module_snakefile(config, "hydra-genetics/biomarker", path="workflow/Snakefile", tag="v0.3.1")
+        get_module_snakefile(config, "hydra-genetics/biomarker", path="workflow/Snakefile", tag="v0.4.0")
     config:
         config