General Discussion
Show all
Sort by newest post
-
error: tag GP has wrong number of fields. running bcftools norm -m-any0 votes 1 comment
-
DRAGEN-GATK short variant calling0 votes 2 comments
-
MarkDuplicates using more cpus than allowed1 vote 2 comments
-
Picard duplication rates compared with samtools flagstats0 votes 1 comment
-
Read group info in mapped and unmapped bam files0 votes 6 comments
-
cfDNA targeted sequencing - analysis pipeline0 votes 4 comments
-
GenotypeGVCFs error IndexOutOfBoundsException0 votes 9 comments
-
somatic CNV pipeline segmentation with custom het list?0 votes 3 comments
-
Haplotypecaller WARN InbreedingCoeff, DeptPerSampleHC and StrandBiasBySample Answered1 vote 9 comments
-
PathSeqBuildReferenceTaxonomy output Answered0 votes 2 comments
-
GATK4 SCNA Pipeline Double-Counting Issue for Overlapping Reads Answered0 votes 1 comment
-
HRun not found in vcf header or INFO Answered0 votes 5 comments
-
MarkduplicateSpark error Answered0 votes 1 comment
-
Consolidate gVCF calling Answered0 votes 2 comments
-
CNNScoreVariants not working Answered0 votes 7 comments
-
Running Funcotator Cosmic after Mutect2 Answered0 votes 4 comments
-
Effect of using unsorted bam for gvcf calling Answered0 votes 2 comments
-
LiftoverVCF - Removing MismatchedRefAllele Error Answered0 votes 1 comment
-
Avoid re-doing STAR references in RNAseq Germline variant workflow Answered1 vote 4 comments
-
When I try to switch to MarkDuplicatesSpark from MarkDuplicates I get error Answered0 votes 3 comments
-
Tracks for germlineCNV calling AnnotateIntervals0 votes 2 comments
-
somatic CNV PoN recommendation? Answered0 votes 3 comments
-
GenomeSTRiP CNVDiscoveryPipeline failed Answered0 votes 11 comments
-
How do I import my data into notebook for germline filtering? Answered0 votes 11 comments
-
how does haplotypecaller deal with soft clipped bases Answered0 votes 2 comments
-
Want to know conflicting gatk options with AGeNT LocatIt Answered0 votes 1 comment
-
Mutect2 occasionally calling variants from perfectly mapped reads, or even no reads at all Answered0 votes 3 comments
-
MergeBamAlignment (Picard) - Error in Terra GATK Variant Calling Workflow Answered0 votes 1 comment
-
CreateSomaticPanelOfNormals Answered0 votes 2 comments