Non-Human
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FixMateInformation does not solve ERROR:MATE_NOT_FOUND1 vote 7 comments
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Variant calling with PacBio HiFi reads1 vote 4 comments
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GATK-HaplotypeCaller results generate records with read depth of zero?1 vote 2 comments
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HaplotypeCaller for denovo RNAseq output1 vote 3 comments
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Some problems in VCF filtering after GATK HaplotypeCaller step？1 vote 1 comment
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GenomicsDBImport very slow on genome with many contigs1 vote 13 comments
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Analy1 vote 3 comments
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HaplotypeCaller does not recognize the RefSeqfile1 vote 2 comments
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GenomicsDBimport not importing all the batches0 votes 3 comments
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haplotypecallerspark wants DS_Store0 votes 6 comments
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Missing samples from the output vcf file produced with GenotypeGVCFs0 votes 5 comments
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emit-ref-confidence error0 votes 3 comments
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Genome STRiP - The output file of SVDiscovery is empty0 votes 4 comments
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REAL Variant not called by HaplotypeCaller0 votes 1 comment
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Error Creatting Dictionary for genome0 votes 1 comment
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MarkDuplicatesSpark not working on Putty0 votes 1 comment
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Weird log of genotypeGVCF0 votes 1 comment
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Why is GenotypeGVCF taking a long time for a smaller genome?0 votes 4 comments
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Exclude-intervals error with PathSeq0 votes 1 comment
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How do I call germline variants with multiple samples -non human?0 votes 2 comments
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AnalyzeCovaiates BQSR plots on canine data0 votes 3 comments
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Disable strandbias0 votes 1 comment
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False positive Indel calling with GATK v4.1.4.00 votes 1 comment
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ApplyBQSR reduces reads quality0 votes 3 comments
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Getting an error with genomicsdbimport0 votes 9 comments
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Missing MQ scores in gvcf0 votes 7 comments
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Why does GATK haplotype caller calls SNPs from soft-clipped bases?0 votes 1 comment