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Pull requests: broadinstitute/gatk

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Pull requests list

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…
[DRAFT] Partitioning experiments [VS-1820]
#9342 opened Mar 4, 2026 by mcovarr • Draft
1
Fix VCF integration assertion, revert extract scatters [VS-1820]
#9340 opened Mar 2, 2026 by mcovarr Loading…
2
VS-1779 clean up parquet files immediatement
#9338 opened Feb 26, 2026 by gbggrant Loading…
29
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 Loading…
4
Vs 1736 - changing import to use parquet
#9301 opened Dec 3, 2025 by koncheto-broad • Draft
Add VEP + LOFTEE (+ GERP + HGNC) to VAT [VS-1520] [VS-1765] [VS-1767]
#9299 opened Nov 24, 2025 by mcovarr Loading…
39
Testing non-MKL BLAS for gCNV.
#9290 opened Oct 20, 2025 by samuelklee • Draft
3
Bump org.apache.zookeeper:zookeeper from 3.9.2 to 3.9.4 dependencies Pull requests that update a dependency file java Pull requests that update Java code
#9274 opened Sep 24, 2025 by dependabot bot Loading…
Hatcher testing parquet
#9267 opened Sep 19, 2025 by koncheto-broad • Draft
Update MendelianViolation . Fix java.lang.IndexOutOfBoundsException: when a genotype is haploid.
#9241 opened Jul 30, 2025 by lindenb Loading…
Ploidy status rows
#9229 opened Jul 15, 2025 by mcovarr • Draft
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 Loading…
44
test yossi's fasta change
#9179 opened May 19, 2025 by lbergelson • 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 Loading…
1
Update hadoop 3.3.6 -> 3.4.0
#9132 opened Mar 28, 2025 by lbergelson Loading…
2
Add a WDL to annotate any vcf
#9122 opened Mar 22, 2025 by RoriCremer • Draft
CRAM 3.1 read support
#9095 opened Feb 11, 2025 by cmnbroad Loading…
2
Fixing what looks like a a bug in MendelianViolationEvaluator
#9080 opened Jan 15, 2025 by lbergelson Loading…
1
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