From d20f0ccb7b3d9499650a75d5d17aad0f9cb0b6b2 Mon Sep 17 00:00:00 2001 From: jonca79 <54137490+jonca79@users.noreply.github.com> Date: Mon, 26 Feb 2024 11:04:06 +0100 Subject: [PATCH 1/2] fix: rm dangerous qual filter form umi --- config/filters/config_hard_filter_umi_vep105.yaml | 4 ---- 1 file changed, 4 deletions(-) diff --git a/config/filters/config_hard_filter_umi_vep105.yaml b/config/filters/config_hard_filter_umi_vep105.yaml index 3c1b5e2c..e0b4fb64 100644 --- a/config/filters/config_hard_filter_umi_vep105.yaml +++ b/config/filters/config_hard_filter_umi_vep105.yaml @@ -67,7 +67,3 @@ filters: description: "Hard filter variants only called by mutect2" expression: "INFO:CALLERS:0 = gatk_mutect2" soft_filter: "False" - qual: - description: "Hard filter variants with low calling quality" - expression: "INFO:QUAL:0 < 43.0" - soft_filter: "False" From c9d45840a4c4efcffda44e0654c157571b6558cf Mon Sep 17 00:00:00 2001 From: jonca79 <54137490+jonca79@users.noreply.github.com> Date: Mon, 26 Feb 2024 11:04:57 +0100 Subject: [PATCH 2/2] fix: rm dangerous qual filter form umi --- config/filters/config_soft_filter_umi_vep105.yaml | 5 ----- 1 file changed, 5 deletions(-) diff --git a/config/filters/config_soft_filter_umi_vep105.yaml b/config/filters/config_soft_filter_umi_vep105.yaml index a46afb17..fadf0abe 100644 --- a/config/filters/config_soft_filter_umi_vep105.yaml +++ b/config/filters/config_soft_filter_umi_vep105.yaml @@ -84,8 +84,3 @@ filters: expression: "INFO:CALLERS:0 = gatk_mutect2" soft_filter_flag: "only_mutect2" soft_filter: "True" - qual: - description: "Hard filter variants with low calling quality" - expression: "INFO:QUAL:0 < 43.0" - soft_filter_flag: "calling_qual" - soft_filter: "True"