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Pull requests: broadinstitute/gatk

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Pull requests list

Bring in some performance improvements from genomicsdb
#9059 opened Dec 3, 2024 by nalinigans Loading…
2
Joel gsutil
#9052 opened Nov 21, 2024 by jmthibault79 • Draft
Sample chromosome ploidy support for RWB Echo [VS-1500] ⛔ DO NOT MERGE ⛔
#9051 opened Nov 20, 2024 by mcovarr Loading…
6
[DO NOT MERGE]
#9045 opened Nov 15, 2024 by jamesemery Loading…
6
Yyu test 1
#9026 opened Oct 30, 2024 by yonghaoy • Draft
BQSR: avoid throwing an error when read group is missing in the recal table, and some refactoring.
#9020 opened Oct 28, 2024 by takutosato Loading…
@davidbenjamin
46
Create tools for SV VCF cleaning
#8996 opened Oct 9, 2024 by kjaisingh • Draft
@kjaisingh
22
FlowFeatureMapper speed improvements
#8982 opened Sep 16, 2024 by dror27 • Draft
12
Add a few additional failures to our notes doc
#8980 opened Sep 15, 2024 by RoriCremer Loading…
28
Bundle support for FeatureInputs, references; add CreateBundle tool.
#8944 opened Aug 6, 2024 by cmnbroad • Draft
[DRAFT] Merge master to ah var store again [VS-1178]
#8890 opened Jun 24, 2024 by mcovarr • Draft
1
Add utilites to update Echo filters and reference genotypes
#8867 opened Jun 11, 2024 by chrisvittal Loading…
6
Add keep-contig-names parameter
#8865 opened Jun 6, 2024 by gokalpcelik • Draft
3
Funcotator - removing the required transcript file
#8863 opened Jun 5, 2024 by jonn-smith • Draft
35
Changed flow allele filtering in Mutect2 to work separately on the tumor and the normal samples
#8855 opened Jun 1, 2024 by ilyasoifer • Draft
Rc vs 1365 hatcher testing parquet
#8845 opened May 23, 2024 by RoriCremer • Draft
Added long read walkers from long-running branch.
#8799 opened Apr 29, 2024 by jonn-smith Loading…
32
⛔ [DO NOT MERGE] ⛔ Fix partition grouping bug ⛔
#8785 opened Apr 21, 2024 by mcovarr Loading…
1
add echocallset as an option for integration test
#8757 opened Apr 1, 2024 by RoriCremer Loading…
DRAFT: Use temp snapshot of htsjdk with rans refactoring.
#8730 opened Mar 11, 2024 by cmnbroad • Draft
Leave validation cluster running at end [VS-901]
#8729 opened Mar 11, 2024 by mcovarr Loading…
Test out the preview version of the next GKL (DO NOT MERGE)
#8712 opened Mar 4, 2024 by droazen Loading…
@jamesemery
15
Vs 299 spike speed up integration tests
#8706 opened Feb 29, 2024 by koncheto-broad • Draft
Remove hdfs support for GenomicsDB
#8698 opened Feb 16, 2024 by nalinigans • Draft
Refactoring a confusing method in GATKVariantContextUtils
#8690 opened Feb 13, 2024 by lbergelson • Draft
6
ProTip! What’s not been updated in a month: updated:<2024-11-26.