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We’re moving the GATK website, docs and forum to a new platform. Read the full story and breakdown of key changes on this blog.
zuoxy ✭
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Guys, any updated information about the cutoff ? Looking forward to it.
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(Quote) The mutect-1.1.7 seems to work correctly! Many thanks! I have another two questions: 1) Could mutect support multithreading and how could I reduce the total runtime since it require half a month for WES; 2) Could BQSR, indelRealign be perfor…
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Hi, I got an error when running on Normal/Tumor bam file: ERROR MESSAGE: java.lang.IllegalArgumentException: Comparison method violates its general contract! below is my command: java -jar muTect-1.1.4.jar --analysis_type MuTect --intervals regio…
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Thanks Sheila. But I further want to figure out whether there is any difference on the final vcf between the two workflow: GenotypeGVCFs all samples together then VQSR and GenotypeGVCFs+VQSR per batch then CombineVariants. Does GATK have some worke…
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It is indeed a problem of the configuration of java environment on the cluster. Thank you