Skip to content

Pull requests: broadinstitute/gatk

New pull request New
Clear current search query, filters, and sorts
136 Open 4,401 Closed
136 Open 4,401 Closed
Author
Filter by author
Loading
Label
Filter by label
Loading
Use alt + click/return to exclude labels
or ⇧ + click/return for logical OR
Projects
Filter by project
Loading
Milestones
Filter by milestone
Loading
Reviews
Filter by reviews
No reviews Review required Approved review Changes requested
Assignee
Filter by who’s assigned
Sort
Sort by
Newest Oldest Most commented Least commented Recently updated Least recently updated Best match
Most reactions
👍 👎 😄 🎉 😕 ❤️ 🚀 👀

Pull requests list

dummy PR for carrot testing **DO NOT MERGE**
#7651 opened Jan 27, 2022 by jamesemery Loading…
44
**DO NOT MERGE** assembly changes to test carrot
#7723 opened Mar 15, 2022 by jamesemery Loading…
32
Created FuncotatorDataSourceBundler Tool
#7427 opened Aug 19, 2021 by haileypfox Loading…
@jonn-smith
95
Test out the preview version of the next GKL (DO NOT MERGE)
#8712 opened Mar 4, 2024 by droazen Loading…
@jamesemery
16
Added annotation field in GencodeFuncotation
#7343 opened Jul 9, 2021 by haileypfox Loading…
1
@haileypfox
17
[DO NOT MERGE]
#9045 opened Nov 15, 2024 by jamesemery Loading…
15
Removed restriction that physical phasing may only be run in ERC modes.
#5772 opened Mar 7, 2019 by tfenne Loading…
@tfenne
13
DRAFT: Changes for htsjdk VCFHeader refactoring
#8306 opened May 2, 2023 by cmnbroad • Draft
12
new PasteDepthEvidence tool
#8031 opened Sep 22, 2022 by tedsharpe Loading…
@tedsharpe
41
Added in code to populate the name of VariantContext objects. Engine
#4571 opened Mar 23, 2018 by jonn-smith Loading…
1
@KevinCLydon
24
Adding in default value for funcotator transcript selection list.
#5872 opened Apr 9, 2019 by jonn-smith Loading…
1
@jonn-smith
13
Gg vs 887 streamline vat tsv extract
#8508 opened Aug 30, 2023 by gbggrant • Draft
10
Funcotator - removing the required transcript file
#8863 opened Jun 5, 2024 by jonn-smith • Draft
35
Subsetting for A-length annotations (e.g. AF, PRI, F1R2, F2R1),
#7725 opened Mar 15, 2022 by ldgauthier Loading…
9
genotypingEngine seems to have a bug in the logic in the presence of ambiguous alleles.
#6363 opened Jan 9, 2020 by yfarjoun Loading…
@davidbenjamin
27
Added a useful debugging output mode that prints a summary of every assembly region assembly enhancement
#6441 opened Feb 4, 2020 by jamesemery Loading…
@jamesemery
27
Changed ReferenceConfidenceModel to use offsetlength counting deletions for ending comparisons bug JointCalling
#5665 opened Feb 12, 2019 by jamesemery Loading…
1
@droazen @jamesemery
10
Memory-less HMM transition matrix for baseline copy-number states and silent CNV classes Copy Number tools Germline CNV
#4988 opened Jul 6, 2018 by mbabadi Loading…
@asmirnov239 @mbabadi
11
(DO NOT MERGE) Added non-root user to Dockerfile.
#6525 opened Mar 25, 2020 by samuelklee Loading…
2
@lbergelson
7
Yf fix multiplicity bug in split suffixes
#6453 opened Feb 13, 2020 by yfarjoun Loading…
@davidbenjamin
8
BQSR: restore ability to specify custom covariates and to disable standard covariates
#4688 opened Apr 20, 2018 by droazen Loading… Engine-Q12019
@droazen
7
Changed exact-match tests for ModelSegments to allow for numerical differences due to Java version.
#8111 opened Nov 29, 2022 by samuelklee Loading…
1
6
Funcotator: adding a catch Funcotator
#7936 opened Jul 12, 2022 by jkobject Loading…
@jonn-smith
10
(DO NOT MERGE) Draft PR for reimplementation of annotation-based filtering tools.
#7659 opened Jan 31, 2022 by samuelklee • Draft
99
Temporary branch for CARROT test
#7039 opened Jan 14, 2021 by michaelgatzen • Draft
6
ProTip! Mix and match filters to narrow down what you’re looking for.