Documentation Questions

SamToFastq - bam order Answered
- Jakub Savara
- July 24, 2022 10:48
0 votes 6 comments
HaplotypeCaller using one sample split in two bam files Answered
- elena vigorito
- June 28, 2022 09:16
0 votes 3 comments
ASEReadCount Only Outputting the First Chromosome Answered
- Leslie Youtsey
- August 31, 2022 19:31
0 votes 3 comments
Too many duplicate articles Answered
- Дмитрий Голик
- September 09, 2022 09:14
0 votes 2 comments
Where is the list of annotations and annotation groups? Answered
- tedtoal
- July 05, 2021 23:05
2 votes 7 comments
germline mutation calling using per-sample module Answered
- chenglei
- June 08, 2022 16:06
0 votes 2 comments
ASEReadCounter outputting blank table Answered
- Leslie Youtsey
- August 24, 2022 17:53
- Edited
0 votes 4 comments
mutect2 multi-sample Answered
- zhao shilin
- May 07, 2020 17:27
- Edited
0 votes 33 comments
GATK CNV somatic panels of normal design Answered
- Mallika Gandham
- May 04, 2022 16:07
0 votes 3 comments
Mitochondrial shifted reference Answered
- MARC TORMO PUIGGROS
- January 26, 2022 10:57
0 votes 4 comments
Limit core use of DetermineGermlineContigPloidy & GermlineCNVCaller Answered
- Blaz Vrhovsek
- June 30, 2022 11:27
1 vote 1 comment
GATK genomicsDBImport error Answered
- @OK
- June 14, 2022 11:11
0 votes 3 comments
Documentation for running GATK and Cromwell on IBM Cloud Answered
- Takeshi Yoshimura
- April 05, 2022 01:24
1 vote 7 comments
Haplotypecaller Answered
- Mahdi Ahmadi
- May 30, 2022 16:45
0 votes 1 comment
JointGermlineCNVSegmentation Answered
- Yangyxt
- April 30, 2022 06:56
0 votes 2 comments
BaseRecalibrator --max-cycle Answered
- oğuzhan karaosmanoğlu
- May 12, 2022 11:11
0 votes 1 comment
Question on Java version Answered
- Anand
- May 10, 2022 15:24
0 votes 2 comments
GetPileupSummaries common germline variant sites VCF hg38 Answered
- Anish K
- April 18, 2022 16:48
0 votes 2 comments
MergeBamAlignment for mitochondrial variant discovery Answered
- Ahmed S. Chakroun
- March 18, 2022 17:33
0 votes 1 comment
how to run "gatk-register"? Answered
- Mahendra Singh
- March 28, 2022 04:28
0 votes 2 comments
MergeBamAlignment conflicting headers between mapped and unmapped Answered
- TA
- March 04, 2022 15:13
0 votes 3 comments
Is FilterAlignmentArtifacts out of the Mutect2 calling best practices? Answered
- shenglai
- March 11, 2022 01:53
0 votes 1 comment
genotyping calls don't align with coverage Answered
- Gertjan Wils
- March 15, 2022 12:57
1 vote 1 comment
How is tumor_f in Funcotator MAF Answered
- Robert Bremel
- May 26, 2020 17:11
0 votes 3 comments
VariantsToTable not working Answered
- Arwa Ahmad
- February 25, 2022 08:56
0 votes 2 comments
How to evlauate the result: GenotypeConcordance or Concordance Answered
- lizhichao
- February 17, 2022 09:09
0 votes 6 comments
GATK GenotypeGVCFs miss a real Insertion Answered
- touyupang
- February 18, 2022 07:45
0 votes 6 comments
germline-resource Answered
- Juechen Yang
- March 17, 2020 17:32
0 votes 10 comments
Mosaic gCNVs with GATK Answered
- Naga
- January 13, 2022 17:32
- Edited
0 votes 1 comment
WDL pipeline: Mitochondrial-short-variant-discovery Answered
- manolis
- January 25, 2022 07:57
0 votes 2 comments

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