Somatic
Show all
Sort by newest post
-
Mutect2 calls long deletion with absolutely zero read support Answered0 votes 1 comment
-
Deletion is split into two deletions Answered0 votes 1 comment
-
Running Mutect 2 with matched normal vs tumor mode0 votes 3 comments
-
Why do I get 'java.lang.IllegalArgumentException: Dictionary cannot have size zero' when using GetPileupSummaries? Answered0 votes 12 comments
-
Not generating denoisedLimit4.png with PlotModeledSegments0 votes 4 comments
-
Mutect2 issue with --force-active: not all regions are active Answered1 vote 25 comments
-
Incorrect Annotation from Funcotator Answered0 votes 5 comments
-
merge nearby variants in vcf from mutect2 Answered0 votes 1 comment
-
gatk stack memory insufficient to run Mutect2 for artifact correction Answered0 votes 1 comment
-
Mutect2 genotype-germline-sites filtering discrepancy Answered0 votes 4 comments
-
Error running mutect2 on SAM files remapped to hg38 (original reads were aligned to hg19). Answered0 votes 1 comment
-
Missing Variants from Panel of Normals Answered0 votes 2 comments
-
GetPileupSummaries Answered0 votes 5 comments
-
Mutect2 PoN - GenomicsDBImport creates empty DB Answered0 votes 15 comments
-
Created panel of normals returns empty vcf Answered0 votes 3 comments
-
selecting allele depth Mutect2 Answered0 votes 1 comment
-
The mutect ERROR：Please add an explicit type tag :NAME listing the correct type from among the supported types Answered0 votes 3 comments
-
Error while running CreateReadCountPanelOfNormals with gatk-4.1.4.1 Answered0 votes 3 comments
-
MuTect2 Mismatch between the reference haplotype and the reference assembly graph path. Answered0 votes 1 comment
-
The output of Mutect2 cannot be accepted by FilterMutectCalls in GATK-4.2.0.0 Answered0 votes 10 comments
-
The depth of SNV/InDels calculated by Mutect2 in GATK4.2.0.0 is much lower than real sequencing depth, why? Answered0 votes 18 comments
-
How do I set less stringent germline filtering in Mutect2 / filtermutectcalls, many false negatives Answered0 votes 1 comment
-
Mysterious Funcotator issue Answered0 votes 7 comments
-
MergeBamAlignment produces unknown error Answered0 votes 4 comments
-
CollectAllelicCounts- Exception in thread "main" java.lang.OutOfMemoryError: GC overhead limit exceeded Answered0 votes 12 comments
-
IlluminaBasecallsToSam does not demultiplex NovaSeq barcoded reads Answered0 votes 5 comments
-
java.lang.OutofMemoryError: GC overhead limit exceeded Answered0 votes 28 comments
-
GenomicsDBImport does not support GVCFs with MNPs Answered0 votes 1 comment