Non-Human
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GenotypeGVCFs stalls while using --all-sites0 votes 18 comments
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GenomicsDBImport very slow on genome with many contigs1 vote 13 comments
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Provider "genedb" not found when using SelectVariants & GenomicsDBImport0 votes 11 comments
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GenomicsDBimport not importing all the batches0 votes 10 comments
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Getting an error with genomicsdbimport0 votes 9 comments
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HaplotypeCaller too many alternative alleles found0 votes 9 comments
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Unphased homozyous sites between phased heterozygous sites0 votes 9 comments
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GenotypeGvcfs has formatting issues in both v4.1.6.0 as v4.1.7.00 votes 8 comments
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HaplotypeCaller local Assembly0 votes 8 comments
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Empty vcf after GenotypeVCFs when combining already genotyped samples0 votes 8 comments
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Error running HaplotypeCaller?0 votes 8 comments
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emit-ref-confidence error0 votes 7 comments
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FixMateInformation does not solve ERROR:MATE_NOT_FOUND1 vote 7 comments
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Missing MQ scores in gvcf0 votes 7 comments
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HaplotypeCaller for haploid genome0 votes 7 comments
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Which exact info does BaseRecalibrator uses from a vcf?0 votes 7 comments
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About Bam file input problem in HaplotypCaller0 votes 6 comments
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haplotypecallerspark wants DS_Store0 votes 6 comments
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GATK4 - Parallelizing genotypegvcfs0 votes 6 comments
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"No positional argument is defined" Error in HaplotypeCaller0 votes 5 comments
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Missing samples from the output vcf file produced with GenotypeGVCFs0 votes 5 comments
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Missing value evaluate as fail0 votes 5 comments
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Cannot run through CNVDiscoverypipeline0 votes 5 comments
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How to filter on SnpEff EFF field using GATK0 votes 5 comments
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SNP calling with multi-sample plant data0 votes 5 comments
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Fungal mitochondrial variant calling0 votes 5 comments