Somatic
Show all
Sort by comments
-
Mutect2 Funcotator error0 votes 31 comments
-
Mutect2-PON Storage object issue when running across multiple samples?0 votes 30 comments
-
java.lang.OutofMemoryError: GC overhead limit exceeded Answered0 votes 28 comments
-
Funcotator errors0 votes 27 comments
-
Artefactual calls using Mutect2 on RNAseq data Answered0 votes 25 comments
-
Mutect2 issue with --force-active: not all regions are active1 vote 21 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
-
Mutect2 PON - gnomAD input?0 votes 18 comments
-
CalculateContamination: Multiple KernelSegmenter warnings0 votes 17 comments
-
Mutect2 doesn't produce stats file0 votes 17 comments
-
Broad hg38 ICE interval list Answered2 votes 17 comments
-
Empty final PON vcf file from 7 samples0 votes 16 comments
-
Mutect2 PoN - GenomicsDBImport creates empty DB Answered0 votes 15 comments
-
Mutect2 MISSING Low Frequency key (TP53 and KRAS) mutations1 vote 15 comments
-
Mutect2 - somatic variant calling with/without matched normal sample1 vote 14 comments
-
Funcotator data source not correct Answered0 votes 13 comments
-
Mutect2 multi-sample pipeline0 votes 13 comments
-
Option "--dont-use-soft-clipped-bases" does not seem to work in Mutect20 votes 13 comments
-
Increased number of false positives in Mutect2 GATK 4.1.7.00 votes 13 comments
-
Picard Liftover hg38 to hg19 Error. Answered0 votes 13 comments
-
Mutect2 - Need one or two reads to construct a fragment0 votes 13 comments
-
Why do I get 'java.lang.IllegalArgumentException: Dictionary cannot have size zero' when using GetPileupSummaries? Answered0 votes 12 comments
-
CollectAllelicCounts- Exception in thread "main" java.lang.OutOfMemoryError: GC overhead limit exceeded Answered0 votes 12 comments
-
Why do a clear expected variant not show up in the Mutect2 vcf file Answered0 votes 12 comments
-
Issues with Java heap space in CollectAllelicCounts0 votes 12 comments
-
BaseRecalibrator raised htsjdk.tribble.TribbleException$MalformedFeatureFile0 votes 12 comments
-
Interpretting CrosscheckFingerprints metrics0 votes 12 comments
-
Mutect2: Incorrectly computed allelic depths and likely false-positive calls0 votes 11 comments
-
Why do I see a variant called by mutect2 in my matched-normal sample when checking the results? Answered0 votes 10 comments
-
The output of Mutect2 cannot be accepted by FilterMutectCalls in GATK-4.2.0.0 Answered0 votes 10 comments