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Can Mutect2 be used for paper?

It is said on the GATK web that Mutect2 is a BETA tool and is not yet ready for use in production. But I actually found some paper has already used it. So can Mutect2 be used in paper practically?

gatk mutect2
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updated by Nicolas Rosewick Nicolas Rosewick • written by Laven9 • Laven9

2 answers

Sure, papers using mutect2 appear all the time. An official publication is not required to use a tool productively, see bwa mem arguably the most prominent alignment software in bioinformatics has no official publication in a peer-reviewed journal.

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written by ATpoint ATpoint

Make sense. I think I have mistaken productive use for paper use. Thank you for your answer!

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written by Laven9 • Laven9

Since gatk 4.1.0.0 mutect2 is not in beta anymore : https://github.com/broadinstitute/gatk/releases

So you can use it in paper without problem ;-)

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written by Nicolas Rosewick Nicolas Rosewick

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