Genome Analysis Toolkit

Variant Discovery in High-Throughput Sequencing Data

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Developed in the Data Sciences Platform at the Broad Institute, the toolkit offers a wide variety of tools with a primary focus on variant discovery and genotyping. Its powerful processing engine and high-performance computing features make it capable of taking on projects of any size. Learn more

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OverlappingErrorMetric Follow

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GATK Team

Metrics

Category Metrics

Overview

An error metric for the errors invovling bases in the overlapping region of a read-pair. The resulting metric includes error rate information which can be assigned to the reading of the molecular insert {@link #DISAGREES_WITH_REF_AND_MATE_ONLY_Q}, error rate which can be assigned to events that occured to to the molecular insert before it was loaded onto the flowcell/sequencer {@link #DISAGREES_WITH_REFERENCE_ONLY_Q}, and an error rate which cannot be explained nicely {@link #THREE_WAYS_DISAGREEMENT_ONLY_Q}.

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GATK version 4.4.0.0 built at Thu, 16 Mar 2023 15:00:37 -0400.

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