Non-Human
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Invariant sites with REF alleles longer than 10 votes 7 comments
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Why does the vcf file have AC=0 variation?0 votes 0 comments
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Can not create an Index file for my gvcf0 votes 6 comments
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Using "RNAseq short variant discovery" without known-sites VCF file0 votes 3 comments
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Difference in AD/GT output for HaplotypeCaller GVCF vs VCF0 votes 3 comments
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Haplotypecaller FORMAT:DP is affected by the interval in WGS0 votes 7 comments
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Can CalculateGenotypePosteriors be used on hard-filtered VCF0 votes 4 comments
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PlotDenoisedCopyRatios lead to empty result for non-human results0 votes 2 comments
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GATK for microbes0 votes 5 comments
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Interval issue with Mouse Variant Calling BaseRecalibrator0 votes 1 comment
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How to create a vcf file with variants of pooled lines?0 votes 5 comments
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GenotypeGVCFs generates empty vcf.gz files0 votes 9 comments
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AnalyzeCovariates were stopped.0 votes 4 comments
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Recalibration ApplyBQSR crash0 votes 3 comments
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GATK not replacing variants in reference sequence0 votes 9 comments
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Merge Bam + Mark Duplicates breaks alignment0 votes 3 comments
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updatef version of pathseq reference database0 votes 1 comment
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Non-human reference genome metadata building0 votes 1 comment
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VariantFiltration filtering all SNPs for all samples to missing0 votes 2 comments
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GQ=0 upstream of regions with no mapped reads0 votes 4 comments
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HaplotypeCaller can't input the known variant from pooled samples0 votes 2 comments
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FastaAlternateReferenceMaker not replacing sites in fasta file0 votes 11 comments