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Pull requests: broadinstitute/gatk

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Pull requests list

Optional VEP / LOFTEE for VAT [VS-1854]
#9364 opened Apr 23, 2026 by mcovarr Collaborator Loading…
6
[DO NOT MERGE] Foxtrot 2026-04-22 01
#9363 opened Apr 23, 2026 by mcovarr Collaborator • Draft
[DRAFT] Iceberg experiments
#9360 opened Apr 14, 2026 by mcovarr Collaborator • Draft
1
[DRAFT] Support mass quantities of intervals [VS-1771]
#9359 opened Apr 9, 2026 by mcovarr Collaborator • Draft
1
Fix gCNV retry seed being deterministic and potentially negative
#9346 opened Mar 11, 2026 by dami-gupta-git Loading…
Bump org.apache.zookeeper:zookeeper from 3.9.2 to 3.9.5 dependencies Pull requests that update a dependency file java Pull requests that update Java code
#9344 opened Mar 10, 2026 by dependabot Bot Loading…
Bump io.airlift:aircompressor from 0.27 to 2.0.3 dependencies Pull requests that update a dependency file java Pull requests that update Java code
#9343 opened Mar 5, 2026 by dependabot Bot Loading…
feat: Onboard service to Catalog
#9332 opened Feb 18, 2026 by backstage-bits Bot Loading…
1
Bump org.apache.avro:avro from 1.12.0 to 1.12.1 dependencies Pull requests that update a dependency file java Pull requests that update Java code
#9330 opened Feb 13, 2026 by dependabot Bot Loading…
Bump ch.qos.logback:logback-core from 1.5.13 to 1.5.25 dependencies Pull requests that update a dependency file java Pull requests that update Java code
#9311 opened Jan 22, 2026 by dependabot Bot Loading…
Fix some bugs in LeftAlignAndTrimVariants
#9305 opened Dec 19, 2025 by kachulis Contributor Loading…
4
Vs 1736 - changing import to use parquet
#9301 opened Dec 3, 2025 by koncheto-broad Collaborator • Draft
Testing non-MKL BLAS for gCNV.
#9290 opened Oct 20, 2025 by samuelklee Contributor • Draft
3
Hatcher testing parquet
#9267 opened Sep 19, 2025 by koncheto-broad Collaborator • Draft
Update MendelianViolation . Fix java.lang.IndexOutOfBoundsException: when a genotype is haploid.
#9241 opened Jul 30, 2025 by lindenb Loading…
Bump org.apache.commons:commons-lang3 from 3.14.0 to 3.18.0 dependencies Pull requests that update a dependency file java Pull requests that update Java code
#9224 opened Jul 12, 2025 by dependabot Bot Loading…
Bump com.nimbusds:nimbus-jose-jwt from 9.41.2 to 10.0.2 dependencies Pull requests that update a dependency file java Pull requests that update Java code
#9223 opened Jul 11, 2025 by dependabot Bot Loading…
BQSR: restore ability to specify custom covariates and to disable standard covariates. (Take 2)
#9206 opened Jun 12, 2025 by takutosato Contributor Loading…
44
test yossi's fasta change
#9179 opened May 19, 2025 by lbergelson Contributor • Draft
3
Output exit result to stderr instead of stdout to allow pipelines
#9176 opened May 15, 2025 by pontushojer Loading…
1
5
Potential fix for code scanning alert no. 15: Implicit narrowing conversion in compound assignment
#9146 opened Apr 13, 2025 by lbergelson Contributor Loading…
1
Update hadoop 3.3.6 -> 3.4.0
#9132 opened Mar 28, 2025 by lbergelson Contributor Loading…
2
Add a WDL to annotate any vcf
#9122 opened Mar 22, 2025 by RoriCremer Contributor • Draft
CRAM 3.1 read support
#9095 opened Feb 11, 2025 by cmnbroad Collaborator Loading…
2
Fixing what looks like a a bug in MendelianViolationEvaluator
#9080 opened Jan 15, 2025 by lbergelson Contributor Loading…
1
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