Add GATK contamination check to complement VerifyBamID2#758

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dorotejavujinovic wants to merge 14 commits into

nf-core:devfrom

dorotejavujinovic:gatk-contamination-clean

Commits on Nov 26, 2025

Add GATK contamination check for WES/WGS samples
Doroteja Vujinovic
committed

Commits on Dec 12, 2025

Commits on Dec 15, 2025

Commits on Dec 16, 2025

Commits on Mar 23, 2026

Address PR review: refactor parse_contamination, fix changelog, add nf-tests
Doroteja Vujinovic
committed

Commits on Mar 24, 2026

Fix missing EOF newline and extra blank line in CHANGELOG
Doroteja Vujinovic
committed
Fix malformed modules.json entry for gatk4/getpileupsummaries
Doroteja Vujinovic
committed
Fix modules.json SHA for gatk4 contamination modules
Doroteja Vujinovic
committed
Fix trailing whitespace in raredisease.nf
Doroteja Vujinovic
committed