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MalformedReadFilter walker not found in GATK?
Hi GATK Team,
Sorry, this is probably a naive question. I would like to use the MalformedReadFilter walker, but downloading the latest GATK release and following the documentation at (https://www.broadinstitute.org/gatk/gatkdocs/org_broadinstitute_gatk_engine_filters_MalformedReadFilter.php):
I used this command,
java -jar /Downloads/GenomeAnalysisTK-3.5/GenomeAnalysisTK.jar -T MalformedReadFilter
But I am getting this error:
ERROR MESSAGE: Invalid command line: Malformed walker argument: Could not find walker with name: MalformedReadFilter
Is there an error in syntax?
Thanks a lot,