Derek Caetano-Anolles
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Votes on activity by Derek Caetano-Anolles Sort by votes-
Thank you, David. So the issue is definitely related to your version of Java, it's not that your Java is too old, but that it is too new. You're running OpenJDK 11, but you're going to need to try ...
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Hi Eva (Evander) -- Good question. The variant calls were not made in the alt contig region, but were based on the Illumina masked reference available in the following DRAGEN-reference in the GCP ...
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Felipe Batalini Good catch. The video link has been updated. Thanks for bringing it to my attention!
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Hi samuel Welcome to using GATK! I hope that we can help get your pipeline sorted out and functioning. To start off with, your input command appears to be using `-conf` instead of the `--conf` opt...
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Hello, Ekin. Your BAM should work regardless of what method you used to create it, assuming it was properly converted. If you are receiving an index reference error, please post your error log and ...
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Here is a description of how to use DetermineGermlineContigPloidy and GermlineCNVCaller to do the type of CNV analyses you are looking for. If you need more information, the DetermineGermlineContig...
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This is most likely an issue related to formatting or mismatches in read length between files. In Java, the ArrayIndexOutOfBoundsException is usually outputted when an index is passed to an array t...
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Great! I'm glad it worked out. Don't hesitate to come back with more questions if you have GATK-related trouble further on down the line.
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Hi again Takeshi Yoshimura, Thanks for the recommendation! I've just updated the document now.
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It's pronounced GATK, using the same sound as in GIF. Hope that clears it up for you, Bob Chen!