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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    Katherine Wilkins

    Hi! When I try to run this script in the docker container at us.gcr.io/broad-gatk/gatk:4.2.1.0 using the option --microbial-mode, I get the following error "A USER ERROR has occurred: microbial-mode is not a recognized option". Is there a different version of GATK that I should be using in order to access this option? Thanks for your help.

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