New User Advice
Show all
Sort by votes
-
Proper way to prepare .bam for MarkDuplicatesSpark Answered1 vote 3 comments
-
Running best practices workflow step-by-step in command line1 vote 5 comments
-
no gatk installation0 votes 0 comments
-
VariantFiltration issue Answered0 votes 3 comments
-
Find rate of homozygosity Answered0 votes 4 comments
-
GenomicsDB Import issues0 votes 1 comment
-
Package ‘gsalib’ was removed from the CRAN repository.0 votes 1 comment
-
A USER ERROR has occurred: Contig chr1_KI270762v1_alt not present in reads sequence dictionary Answered0 votes 5 comments
-
GenomicsDBImport - why "intervals" is required?? Answered0 votes 3 comments
-
Gatk4 rnaseq germline snps indels json file Answered0 votes 3 comments
-
Variant Quality Score Recalibration Answered0 votes 3 comments
-
How to use WGA Data in picard Answered0 votes 3 comments
-
Suggestions to find pathogenic variant Answered0 votes 4 comments
-
Error, ShouldNeverReachHereException, FuncotationMap in FilterFuncotations Answered0 votes 20 comments
-
GATK working, but -ERC command not found Answered0 votes 3 comments
-
Somatic mutation detection in HLA regions using hg38 alt-aware alignments Answered0 votes 2 comments
-
ReadsPipelineSparkMulticore.wdl, Unrecognized runtime attribute keys: discs, cpu Answered0 votes 13 comments
-
Proper references for mutec2 working in tumour-only mode Answered0 votes 1 comment
-
Estimate genotype proportions from filtered variants0 votes 5 comments
-
Discordance genotyping Answered0 votes 1 comment
-
Picard CrosscheckFingerprints not identifying samples from the same individual as a MATCH Answered0 votes 1 comment
-
GATK MarkDuplicatesSpark output error Answered0 votes 3 comments
-
How to provide custom exon-intron annotation source in Funcotator0 votes 4 comments
-
What should I do with vcf file now Answered0 votes 1 comment
-
ApplyBQSR for somatic mutation detection in HLA regions Answered0 votes 7 comments
-
Where is my GATK4 ? Answered0 votes 1 comment