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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GATK Team
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Metrics

Category Metrics

Overview

Metrics that are calculated during the PathSeq scoring

This table summarizes the values that are specific to this metric.

Metric Summary
MAPPED_READS
 The number of non-host reads mapped to a pathogen
UNMAPPED_READS
 The number of non-host reads that could not be mapped to a pathogen

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GATK version 4.6.2.0 built at Sun, 13 Apr 2025 15:34:15 -0400.

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