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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CigarContainsNoNOperator Follow

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GATK Team

Filter out reads with CIGAR containing N operator

Category Read Filters

Overview

Filter out reads containing skipped region from the reference (CIGAR strings with 'N' operator).

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GATK version 4.2.6.1-SNAPSHOT built at Wed, 13 Apr 2022 13:12:10 -0700.

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