ElenaGrassi
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Latest activity by ElenaGrassi-
ElenaGrassi commented,
Sorry I completely forgot :/ With 4.2.5.0 the issue is gone!
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ElenaGrassi commented,
Done, the uploaded file is called haplotype.tar.gz, there is a .sh with the filtering command used without contamination table and tumor segmentation as requested (the filtered variants due to 'hap...
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ElenaGrassi commented,
Will do today, thanks! It's standard hg38.
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ElenaGrassi commented,
Thanks, sure, one example: $ zgrep 25245350_C_G sample123.filtered.vcf.gzchr12 25245350 . C G . haplotype CONTQ=93;DP=84;ECNT=2;GERMQ=18;MBQ=20,20;MFRL=142...
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ElenaGrassi created a post,
FilterMutectCalls, --distance-on-haplotype and variants filtered for haplotype
Answereda) GATK version used: 4.1.4.0 (following best practices closely)I'm analyzing a set of unpaired WES for somatic calls. I have a sample with, I know from Sanger sequencing, two very near mutations o...