yb87625
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Latest activity by yb87625-
yb87625 created a post,
CalculateContamination error
A error occurred when use CalculateContamination, may I ask how to solve it REQUIRED for all errors and issues: a) GATK version used: GATK 4.4.0.0b) Exact command used: gatk --java-options "-Xmx...
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yb87625 commented,
Thanks for your help! Unfortunately, we do not sequence the normal tissue. So far, I used the dbSNP file downloaded from The Mouse Genome Project as the known site files for Baserecalibrator, is i...
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yb87625 created a post,
how to use mutect2 for somatic variant calling among mouse tumor-only tissue (mm39)
REQUIRED for all errors and issues: a) GATK version used: 4.4.0b) Exact command used: gatk Mutect2 \ -R reference.fa \ -I sample.bam \ --germline-resource af-only-gnomad.vcf.gz \ --panel-...