Other

Where's the DRAGEN?
- Matthias De Smet
- February 11, 2020 08:29
0 votes 3 comments
GATK Workshop Registration Details
- margherita mutarelli
- January 29, 2020 11:39
0 votes 3 comments
Known issue: old GATK forum inaccessible Answered
- Tiffany Miller
- January 23, 2020 17:47
- Edited
2 votes 3 comments
ASEReadCounter does not return the value only for chrX
- Kei Enomoto
- February 04, 2023 05:07
- Edited
0 votes 2 comments
Liftover Picard hg19 to hg38: variants were not successfully lifted over
- Andres Caballero
- December 09, 2022 18:39
2 votes 2 comments
Invalid or corrupt jarfile error Answered
- Benjamin Singer
- November 30, 2022 00:55
- Edited
0 votes 2 comments
error when running ASEReadCounter
- behzad
- October 27, 2022 11:20
0 votes 2 comments
SortSam - Question about I/O error
- Henry
- October 27, 2022 08:20
0 votes 2 comments
Cannot use haplotype caller on STAR-aligned data Answered
- David Condon
- August 05, 2022 15:49
0 votes 2 comments
Using the IndexFeatureFile, doesn't recognize -F flag Answered
- Gijs C
- July 30, 2022 12:21
0 votes 2 comments
Genomestrip: Argument with name '--ploidyMapFile' (-ploidyMapFile) is missing
- Senwei
- April 27, 2022 07:59
1 vote 2 comments
change the memory when running SVPreprocess
- zzq
- January 11, 2022 06:21
- Edited
0 votes 2 comments
Funcotator gnomAD MAF columns Answered
- TMB
- August 23, 2021 02:04
0 votes 2 comments
Docker image for GATK3 version 3.7 Answered
- Tatyana Zhuravleva
- June 27, 2021 01:29
0 votes 2 comments
Picard liftover Issue bostau8 to bostau6 Answered
- Abrish
- May 31, 2021 10:20
0 votes 2 comments
DepthOfCoverage Error: Refseq file contains transcripts with zero coding length
- ashgorden
- February 04, 2021 08:15
0 votes 2 comments
Reference Fasta vs Alt Reference Fasta
- Linda Do
- January 29, 2021 21:56
0 votes 2 comments
Mutect2: NuMTs filtering on RNA-seq Answered
- Leore Nehemie Bensabath
- January 29, 2021 15:57
0 votes 2 comments
Resource bundle for GRCh37
- Reda
- January 17, 2021 17:38
0 votes 2 comments
Any documents for 199 columns in Funcotator output?
- Haiying Kong
- January 07, 2021 10:03
0 votes 2 comments
GenomicsDBImport: can different VCF files be imported into one genomicsdb workspace against different interval lists?
- ISmolicz
- December 02, 2020 17:43
0 votes 2 comments
Some stop positions of .interval_list is smaller than the start positions
- Shiva Kazempour
- December 02, 2020 15:35
0 votes 2 comments
Read groups: How do I assign RGID when all samples in a pool are run on all available lanes on a flow cell?
- ISmolicz
- November 03, 2020 11:45
0 votes 2 comments
GenomeSTRiP SVGenotyper not producing genotypes
- Laura Cottino
- September 25, 2020 11:48
0 votes 2 comments
error while running gatk GenotypeConcordance
- Ana Marija
- September 16, 2020 17:04
0 votes 2 comments
CompareSams with LENIENT_HEADER=true doesn't work
- Uri David Akavia
- September 01, 2020 20:11
0 votes 2 comments
Workshop materials
- Wolfgang Resch
- August 17, 2020 20:35
0 votes 2 comments
GenomicsDBImport: has too many genotypes in the combined VCF record
- Nils Homer
- August 06, 2020 00:12
- Edited
1 vote 2 comments
Speeding up GATK4 DepthOfCoverage
- Michael Franklin
- July 27, 2020 02:11
0 votes 2 comments
GATK mark duplicates error
- Kshama Aswath
- July 22, 2020 20:26
- Edited
0 votes 2 comments

Welcome

GATK Team Out of Office

The GATK team will be out of office during December 9th 2022 to January 9th 2022 in observance of the holidays. We will not be able to answer posts from within this period. If you are still experiencing issues when we are back, please re-post your inquiry.