New User Advice
Show all
Sort by comments
-
Error, ShouldNeverReachHereException, FuncotationMap in FilterFuncotations Answered0 votes 24 comments
-
GATK GenomicsDBImport intervals Answered0 votes 19 comments
-
UnsupportedOperationException: getFragment called for paired read0 votes 14 comments
-
ReadsPipelineSparkMulticore.wdl, Unrecognized runtime attribute keys: discs, cpu Answered0 votes 13 comments
-
ValiidateSamFile Error: Mate not found Answered0 votes 13 comments
-
Steps For GATK-gCNV pipleline on Exome Data0 votes 12 comments
-
ApplyBQSR0 votes 10 comments
-
GenomiCDBImport issue0 votes 9 comments
-
VCF file SNP ID missing0 votes 9 comments
-
Help with WDL workflow for mutec2? Answered0 votes 9 comments
-
GATK Germline CNV calling0 votes 8 comments
-
Empty intersection error when applying intervals Answered0 votes 8 comments
-
vcf to maf conversion & cloud application0 votes 7 comments
-
Can I specify a targets file with Haplotypecaller?0 votes 7 comments
-
ApplyBQSR for somatic mutation detection in HLA regions Answered0 votes 7 comments
-
DP for each variant bulk is skewed towards 50 and multiples of 500 votes 7 comments
-
CollectInsertSizeMetrics can't find R0 votes 6 comments
-
Unclear why Picard ValidateSamFile is producing an error Answered0 votes 6 comments
-
Using GATK as a genotyper to genotype existing variants Answered0 votes 6 comments
-
Unable to unzip GATK0 votes 5 comments
-
Germline Variants Calling0 votes 5 comments
-
GATK MarkDuplicates Missing output file1 vote 5 comments
-
GATK configration0 votes 5 comments
-
Markduplicates0 votes 5 comments
-
A USER ERROR has occurred: Contig chr1_KI270762v1_alt not present in reads sequence dictionary Answered0 votes 5 comments
-
Somatic mutation detection in HLA regions using hg38 alt-aware alignments Answered0 votes 5 comments
-
Estimate genotype proportions from filtered variants0 votes 5 comments