Non-Human
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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
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Error: ValidateSamFile Value was put into PairInfoMap more than once.0 votes 3 comments
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output stuck in GenotypeGVCFs0 votes 1 comment
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Keras error in CNNScoreVariants0 votes 7 comments
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MarkDuplicatesSpark running, but not sorting/creating deduped bam files0 votes 3 comments
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"No positional argument is defined" Error in HaplotypeCaller0 votes 5 comments
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About Bam file input problem in HaplotypCaller0 votes 6 comments
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CombineGVCFs splitting MNPs into individual positions0 votes 6 comments
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VQSR: how is insufficient variance inferred for annotations? Answered0 votes 7 comments
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Error Running IndexFeatureFile on Ensembl Mouse GTF file0 votes 1 comment
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gatk HaplotypeCaller gives me an empty vcf Answered0 votes 18 comments
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GenomicsDBimport not importing all the batches0 votes 10 comments
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haplotypecallerspark wants DS_Store0 votes 6 comments