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rtgtools: Add truth set filtered by bait set for WES samples #514

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peterpru opened this issue Feb 8, 2024 · 0 comments
Open

rtgtools: Add truth set filtered by bait set for WES samples #514

peterpru opened this issue Feb 8, 2024 · 0 comments
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bug Something isn't working enhancement Improvement for existing functionality

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@peterpru
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peterpru commented Feb 8, 2024

Description of the bug

When doing rtg vcfeval on exomes, we need to filter the truth sets based on the coordinates of the bait sets, otherwise it will inflate the number of missed SNVs outside the boundaries of the baits.

Proposed solution, when analysis_type = WES, switch to alternative input file for the truth set.

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@peterpru peterpru added bug Something isn't working enhancement Improvement for existing functionality labels Feb 8, 2024
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