1. Community
2. General Discussion
3. mergeBamAlignment error: inappropriate call if not paired read

Hi Alex van Vliet, It has been a while since we've heard from you, so we'll be closing out this ticket in our system. However, please note that if you still require assistance, you need only respon...

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• Anthony DiCi
• January 09, 2023 14:13
• 0 votes

1. Community
2. General Discussion
3. Do GATK tools support Apple silicon?

Thank you for your post, Layne Sadler ! I want to let you know we have received your question. We'll get back to you if we have any updates or follow up questions.  Please see our Support Policy fo...

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• Anthony DiCi
• December 05, 2022 15:25
• 0 votes

1. Community
2. General Discussion
3. How to restore an interrupted execution while running HaplotypeCaller

Thank you for your post, David Medina ! I want to let you know we have received your question. We'll get back to you if we have any updates or follow up questions.  Please see our Support Policy fo...

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• Anthony DiCi
• December 05, 2022 15:23
• 1 vote

1. Community
2. Somatic
3. sample size for somatic CNV

Thank you for your post, Muntadher Jihad ! I want to let you know we have received your question and will be moving it to the Community Discussions -> General Discussion topic, as the Somatic topic...

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• Anthony DiCi
• December 05, 2022 15:14
• 0 votes

1. Community
2. General Discussion
3. mergeBamAlignment error: inappropriate call if not paired read

Hi Alex van Vliet, Thank you for writing to the GATK forum! I hope that we can help you sort this out.I reviewed your inquiry with our developers and received some feedback to share with you.It app...

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• Anthony DiCi
• November 30, 2022 19:50
• 0 votes

1. Community
2. Somatic
3. In case there is no vcf file from genome project, is it still possible to use the  GetPileupSummaries?

Hi Arye Harel, Thank you for your much-appreciated patience while I reviewed your inquiry with our developers. I received some feedback to share with you. The short answer is no regarding your ques...

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• Anthony DiCi
• November 30, 2022 17:00
• 0 votes

1. Community
2. Germline
3. Varinat PASS given Genotype quality = 0

Hi Matteo Orlandi, We haven't heard from you in a while so we're going to close out this ticket. If you still require assistance, simply respond to this email and we'll be happy to pick up where we...

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• Anthony DiCi
• November 30, 2022 16:27
• 0 votes

1. Community
2. General Discussion
3. Equivalent tool for MergeBamAlignment's Primary_Alignment_Strategy=Most Distant?

Hi Charity Goeckeritz, We haven't heard from you in a while so we're going to close out this ticket. If you still require assistance, simply respond to this email and we'll be happy to pick up wher...

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• Anthony DiCi
• November 30, 2022 16:26
• 0 votes

1. Community
2. Germline
3. PostprocessGermlineCNVCalls generate a segment file with missing GT field for the segment file

Hi NawarDalila, We haven't heard from you in a while so we're going to close out this ticket. If you still require assistance, simply respond to this email and we'll be happy to pick up where we le...

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• Anthony DiCi
• November 30, 2022 16:24
• 0 votes

1. Community
2. General Discussion
3. multiple errors and warnings with GenotypeGVCFs

Hi Ali Basuony, Thank you for following up! I'm glad you found a workaround that allowed you to continue forward. Please do not hesitate to reach out for anything else in the future! Best, Anthony

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• Anthony DiCi
• November 30, 2022 16:23
• 0 votes