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Funcotator errors
- MPetlj
- August 05, 2020 23:40
0 votes 27 comments
Incorrect alleles reported by Mutect2
- Guruprasad Ananda
- August 05, 2020 17:44
- Edited
0 votes 1 comment
Issue with output from CollectAllelicCounts
- jejacobs23
- August 04, 2020 22:01
0 votes 1 comment
How can i remove chr_Un* from somatic cnv plots?
- sahuno
- July 29, 2020 12:56
- Edited
0 votes 2 comments
Mutect2, force-calling-mode, and restricting calls to positions in force-call-alleles.vcf
- Robert Dubin
- July 28, 2020 20:27
0 votes 3 comments
GenomicsDBImport genomicsdb-workspace-path not recognized
- Lance Heady
- July 27, 2020 18:28
0 votes 3 comments
Mutect2 output - resources?
- MPetlj
- July 27, 2020 15:47
0 votes 4 comments
error: read goes past end of reference
- Wout Megchelenbrink
- July 24, 2020 14:08
0 votes 5 comments
munmap_chunk(): invalid pointer [FilterAlignmentArtifacts task in mutetct2 workflow]
- sahuno
- July 24, 2020 10:03
0 votes 5 comments
Mutect2's support for MNP in GATK 4.1.8.1?
- Bing
- July 23, 2020 01:29
0 votes 3 comments
CrosscheckFingerprints EXIT_CODE_WHEN_MISMATCH doesn't seem to work
- Alijah O'Connor
- July 22, 2020 17:32
0 votes 2 comments
Mutect2 multi-sample pipeline
- manolis
- July 20, 2020 14:04
0 votes 13 comments
Mutect2 PoN best practice pipeline failed with GenomicsDBImport 'A USER ERROR has occurred: Failed to create reader from file' ERROR
- WangZiwei
- August 07, 2020 07:21
- Edited
0 votes 10 comments
GATK pipeline from which repository (gatk-workflows or broadinstitute/gatk) should I use?
- WangZiwei
- July 20, 2020 07:28
0 votes 5 comments
Mutect2 PoN best practice pipeline failed with GenomicsDBImport 'A USER ERROR has occurred: Failed to create reader from file' ERROR
- WangZiwei
- July 20, 2020 04:55
- Edited
0 votes 3 comments
Mutect2 for ultrasensitive low coverage calling
- Arvind Ravi
- July 17, 2020 13:47
0 votes 2 comments
SAMException: Value was put into PairInfoMap error even after using -M flag
- rohit satyam
- July 15, 2020 07:01
- Edited
0 votes 5 comments
High number of transversions after running Mutect2 and FilterMutectCalls on WES data
- Paul-Arthur Meslin
- July 09, 2020 16:33
- Edited
0 votes 3 comments
I can't make FastaAlternateReferenceMaker works
- Luca Stefanucci
- July 09, 2020 14:00
0 votes 4 comments
Error using output of ScatterIntervalsByNs by SplitIntervals
- Kristian Unger
- July 07, 2020 20:45
0 votes 1 comment
CalculateContamination "there is no such column: contig"
- Jensen Richardson
- July 05, 2020 18:02
1 vote 8 comments
Custom made Panel of Normals required?
- Pedro Miguel Raposo
- July 07, 2020 10:01
- Edited
2 votes 2 comments
A JAVA Error when running GATKSVPipelineBatch.wdl with GATKSVPipelineBatch.ref_panel_1kg.json
- 2tong
- July 01, 2020 04:39
0 votes 1 comment
Mutect2 false negatives
- myourshaw
- June 29, 2020 19:31
- Edited
0 votes 1 comment
Generating ACS like output from new GATK CNV pipeline (WGS)
- Jett Crowdis
- June 26, 2020 18:11
2 votes 4 comments
Mutect2 --alleles param GATK_4.1.7.0
- registered_user
- June 26, 2020 14:54
- Edited
0 votes 2 comments
filtervariant in GATK 3.8
- Bipin Chand
- June 26, 2020 07:20
0 votes 1 comment
Mutect2 parallelize input
- alanhoyle
- June 25, 2020 14:45
0 votes 4 comments
Why no overlaps between shifted variants and non-shifted variants in gatk4-mitochondria-pipeline? (Mutect2)
- Changhan Yoon
- June 24, 2020 08:06
- Edited
0 votes 1 comment
Mutect2-PON Storage object issue when running across multiple samples?
- MPetlj
- June 22, 2020 15:57
0 votes 30 comments

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