How do I input two separate paired-end fastq files into the GATK pipeline? Do I use an interleave-fastq?

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Lauren Fedenia

• February 21, 2020 20:31

Can you please provide
a) GATK version used

4.0.3.0

b) Exact GATK commands used

c) The entire error log if applicable.

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  Bhanu Gandham

  • February 22, 2020 14:56

  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.

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  ISmolicz

  • April 06, 2021 16:55

  Hi Lauren Fedenia,

  What tool are you planning to use with the FASTQ file(s)?

  Kind regards.

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