Non-Human
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gatk4-4.2.4.0-0 Fixmate Error Answered0 votes 2 comments
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GATK HaplotypeCaller disable filter -DF with the error in positional argument value Answered0 votes 1 comment
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VariantEval does not work or something wrong with my ref genome and dbsnps? Answered0 votes 5 comments
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ValidateSamFile Error Answered0 votes 1 comment
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Query regarding CombineGVCFs Answered0 votes 4 comments
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Inconsistent variant call in some pool-seq samples Answered0 votes 3 comments
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GatherVcfs - File number limit?0 votes 3 comments
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GATK GenotypeGVCFs stuck on starting traversal Answered0 votes 7 comments
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How do iquery VCF for specific variants by CHROM and POS0 votes 3 comments
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No downsampling with max-reads-per-alignment-start0 votes 3 comments
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ArtificialHaplotypeRG makes variant heterozygous Answered0 votes 5 comments
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Preform variant calling on 50 bp SE rna-seq data0 votes 4 comments
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gatk MarkDuplicatesSpark exits without error message Answered0 votes 3 comments
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HaplotypeCaller with additional annotation? Answered0 votes 5 comments
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Issues while running GenotypeGVCFs Answered0 votes 11 comments
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GenotypeGVCF: How can I know which sample falied in joint genotyping? Answered0 votes 5 comments
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GenotypeGVCF too many genotypes0 votes 1 comment
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Receiving zero variants processed after HaplotypeCaller and Select Variants Answered0 votes 4 comments
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Unexpected SOR value changes0 votes 1 comment
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Haplotypecaller produce unfinished vcf but no idx (no error)0 votes 13 comments
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CallableLoci on Triticum species0 votes 1 comment
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GATK HaplotypeCaller OS Error - non-existent file or directory0 votes 3 comments
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Where are the sample-level annotations?0 votes 1 comment
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SAME READS has DIFFERENT VARIANTs0 votes 1 comment
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StrandBiasBySample SB in vcf Answered0 votes 10 comments
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VariantFiltration Answered0 votes 7 comments