Wout Megchelenbrink
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Recent activity by Wout Megchelenbrink Sort by recent activity-
VariantAnnotator only reports coverage and other info when there are reads on the ALT allele
GATK version used: v4.1.9.0 I have a series of WES samples and ran the somatic mutation calling pipeline (Mutect2). Next, I took the union of all the reported variants. What I would like to know is...
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VariantAnnotator returns NullPointerException
If you are seeing an error, please provide(REQUIRED) : a) GATK version used: 4.1.8.1 b) Exact command used: gatk VariantAnnotator -V WES.vcf.gz -I WES.bam --output WES_VA.vcf -A Coverage c) Entire ...
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error: read goes past end of reference
Description of the errorRunning Mutect2 (somatic mutation calling) on WES data, I get the error "read goes past end of reference" on a few samples (a minority). WES data was mapped with BWA MEM v0....