From b7a685ea65b9348dad5908af47225e1f710a5d45 Mon Sep 17 00:00:00 2001 From: Chiara Rasi Date: Mon, 20 Jul 2026 14:03:28 +0200 Subject: [PATCH 1/2] Bug in calculating genotype read depth --- CHANGELOG.md | 3 +++ scout/parse/variant/genotype.py | 2 +- 2 files changed, 4 insertions(+), 1 deletion(-) diff --git a/CHANGELOG.md b/CHANGELOG.md index 9faf5076a6..5d7a12ca22 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -4,6 +4,9 @@ This project adheres to [Semantic Versioning](http://semver.org/). About changelog [here](https://keepachangelog.com/en/1.0.0/) +## [unreleased] +### Fixed +- Bug calculating allele read depth (#) ## [4.113.3] ### Fixed diff --git a/scout/parse/variant/genotype.py b/scout/parse/variant/genotype.py index 0c0b9e4afd..5d63f5b884 100755 --- a/scout/parse/variant/genotype.py +++ b/scout/parse/variant/genotype.py @@ -357,7 +357,7 @@ def get_read_depth(variant, pos, alt_depth, ref_depth): if alt_depth != -1: read_depth += alt_depth if ref_depth != -1: - read_depth += alt_depth + read_depth += ref_depth return read_depth From fc48a21d61d1d45812185f2063ca7564fe7bbd3c Mon Sep 17 00:00:00 2001 From: Chiara Rasi Date: Mon, 20 Jul 2026 14:06:01 +0200 Subject: [PATCH 2/2] Fix changelog --- CHANGELOG.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/CHANGELOG.md b/CHANGELOG.md index 5d7a12ca22..34366e1588 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -6,7 +6,7 @@ About changelog [here](https://keepachangelog.com/en/1.0.0/) ## [unreleased] ### Fixed -- Bug calculating allele read depth (#) +- Bug calculating allele read depth in samples genotype module (#6469) ## [4.113.3] ### Fixed