
Alijah O'Connor
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Recent activity by Alijah O'Connor Sort by recent activity-
I haven't found any information about f1r2-min-bq, but here is GATK issue that goes into the min-base-quality-score parameter a bit (https://github.com/broadinstitute/gatk/issues/6045)
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Thank you! Yes, this very helpful in understanding exactly what behavior to expect when I'm using this parameter.
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For sure, but I'm more trying to get at the exact operations that are going on under the hood. The documentation doesn't really help with the questions I posed in the original post. An additional ...
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This appears to be a python problem: Tool returned (STDOUT): -42 (which is the value I set for EXIT_CODE_WHEN_MISMATCH) Python exit code (via subprocess.call()): 4
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Thanks for clarifying some of this Bhanu Gandham, though I would like to mention that compared to many of the other GATK tools, I find the documentation of this tool to be quite confusing. I'm not ...
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There are no descriptions for the fields at http://broadinstitute.github.io/picard/picard-metric-definitions.html#CrosscheckMetric either