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Pull requests: broadinstitute/gatk

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Pull requests list

Create tools for SV VCF cleaning
#8996 opened Oct 9, 2024 by kjaisingh • Draft
Vs 1416 modify ingest to correctly handle ploidy differences in dragen 3 7 8 samples
#8994 opened Oct 9, 2024 by koncheto-broad Loading…
1
VS-1506 - Pull changes from EchoCallset into ah_var_store branch
#8993 opened Oct 8, 2024 by gbggrant • Draft
4
Add SVStratify and GroupedSVCluster tools
#8990 opened Oct 2, 2024 by mwalker174 Loading…
35
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 • Draft
9
Added a check for whether files can be created and executed within the configured tmp-dir
#8951 opened Aug 13, 2024 by KevinCLydon Loading…
1
@jamesemery
1
various vulnerability fixes
#8950 opened Aug 13, 2024 by vilay-nference Loading…
11
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
Code Review for #8752
#8871 opened Jun 13, 2024 by bbimber Loading…
4
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
26
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
vs 1372 excess alt alleles -- set limit to 3 for a test
#8843 opened May 22, 2024 by RoriCremer • Draft
1
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…
Retain all source IDs on VariantContext merge + test
#8752 opened Mar 26, 2024 by lbergelson Loading…
18
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
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