Genome Analysis Toolkit

Variant Discovery in High-Throughput Sequencing Data

GATK process banner

Need Help?

Search our documentation

Community Forum

Hi, How can we help?

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

Articles in this section

See more

ProperlyPairedReadFilter Follow

Avatar
GATK Team

Keep only reads that are properly paired

Category Read Filters

Overview

Keep only paired reads that are properly paired (0x1 and 0x2). Removes single ended reads.

Return to top

GATK version 4.2.4.1-SNAPSHOT built at Tue, 4 Jan 2022 16:50:23 -0800.

Related articles

0 comments

Please sign in to leave a comment.

Powered by Zendesk