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3. In Mutect2 force-calling allele via --alleles does not force-call the allele

Hi -- checking back in! We're hoping to use this in a production application so curious if you have any updates on the next GATK release.

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• Rahul Gupta
• April 07, 2022 13:06
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3. In Mutect2 force-calling allele via --alleles does not force-call the allele

Hi -- just wanted to check in regarding the next GATK release. Do you have a sense for when this is planned to happen? Thanks!

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• Rahul Gupta
• March 16, 2022 18:20
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3. In Mutect2 force-calling allele via --alleles does not force-call the allele

Fantastic! Thank you for the notification, and thanks to the team for taking a look at this!

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• Rahul Gupta
• March 10, 2022 22:56
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3. In Mutect2 force-calling allele via --alleles does not force-call the allele

Nice, thank you Genevieve! Looking forward to getting my hands on the new version when it's ready.

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• Rahul Gupta
• February 16, 2022 14:18
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3. In Mutect2 force-calling allele via --alleles does not force-call the allele

Thanks for your response! The upload is complete -- the file is `220211_RG_bug_report_mutect2.zip`. In it are two folders; each of which is a sample which has exhibited this issue. In each folder `...

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• Rahul Gupta
• February 11, 2022 14:16
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3. In Mutect2 force-calling allele via --alleles does not force-call the allele

Hi Genevieve, Thanks for your reply! Sure. The variant of interest is 8316:T>C. Here are the next few variants if I run using the above command (which doesn't force-call it; though 8517:C>T and 864...

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• Rahul Gupta
• February 07, 2022 21:44
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