Truth set download page for BQSR

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prasundutta87

• January 29, 2021 11:54

If you are seeing an error, please provide(REQUIRED) :
a) GATK version used: 4.1.9.0
b) Exact command used: BaseRecalibrator and ApplyBQSR
c) Entire error log: None

If not an error, choose a category for your question(REQUIRED):
a)How do I (......)?
b) What does (......) mean?
c) Why do I see (......)?
d) Where do I find (human truth set VCF files to be used in BQSR step that is recommended by GATK4 team? Is there a webpage which I can access to download them)?
e) Will (......) be in future releases?

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  Bhanu Gandham

  • January 29, 2021 19:41

  Hi ,

  The GATK support team is focused on resolving questions about GATK tool-specific errors and abnormal results from the tools. For all other questions, such as this one, we are building a backlog to work through when we have the capacity.

  Please continue to post your questions because we will be mining them for improvements to documentation, resources, and tools.

  We cannot guarantee a reply, however, we ask other community members to help out if you know the answer.

  For context, check out our support policy.

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  Pamela Bretscher

  • July 27, 2021 20:21

  All of the available files and resources offered by GATK can be found in the Resource Bundle.

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