Skip to content

Pull requests: nf-core/sarek

New pull request New
39 Open 1,046 Closed
39 Open 1,046 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

convert pytests to nf-test for mutect2
#1874 opened Apr 25, 2025 by maxulysse • Review required
11 tasks
12
Collect intervallist channel output and propagate to genotyping step
#1872 opened Apr 24, 2025 by percyfal • Draft
11 tasks
2
Update all modules
#1871 opened Apr 17, 2025 by maxulysse • Draft
11 tasks
1
Addition of bbsplit for filtering of genomic contaminants
#1850 opened Mar 26, 2025 by apsteinberg • Approved
11 tasks
39
Udate GATK modules - Fix output line lack of specificity
#1839 opened Mar 18, 2025 by johnoooh • Review required
7 of 11 tasks
9
Add parabricks/fq2bam as alternative to fastq_preprocess_gatk
#1804 opened Feb 19, 2025 by famosab • Review required
7 of 11 tasks
30
POC: Usage for nf-core/references in nf-core/sarek
#1783 opened Jan 27, 2025 by maxulysse • Review required
11 tasks
1
Important! Template update for nf-core/tools v3.2.0
#1782 opened Jan 27, 2025 by nf-core-bot • Review required
4
Modification from NF Language server
#1779 opened Jan 23, 2025 by maxulysse • Review required
11 tasks
4
Add files via upload - Posters using Sarek
#1773 opened Jan 15, 2025 by mlfalco-bioinfo • Approved
11 tasks
1
feat: Add linting of FASTQ with FQ/LINT
#1763 opened Dec 17, 2024 by adamrtalbot • Review required
11 tasks
5
Implemented TMB score calculation
#1738 opened Nov 20, 2024 by bounlu • Review required
1 of 11 tasks
7
Implemented MSISENSORPRO tumor-only analysis
#1737 opened Nov 20, 2024 by bounlu • Changes requested
1 of 11 tasks
13
Use original QC values for Deepvariant after BQSR
#1733 opened Nov 15, 2024 by FriederikeHanssen • Draft
11 tasks
3
ci: Remove pytest-workflow
#1729 opened Nov 8, 2024 by edmundmiller • Draft
@edmundmiller
1
WIP Internal Benchmarking
#1721 opened Nov 1, 2024 by famosab • Draft
11 tasks
7
Support for PureCN
#1710 opened Oct 29, 2024 by lbeltrame • Draft
3 of 14 tasks
@lbeltrame
9
Add full test report
#1701 opened Oct 28, 2024 by edmundmiller • Draft
11 tasks
1
@maxulysse @edmundmiller
2
FEAT: Auto CHANGELOG GHA
#1688 opened Oct 14, 2024 by maxulysse • Draft
2
Try to simplify params.tools usage
#1667 opened Sep 30, 2024 by maxulysse • Review required
11 tasks
1
[DRAFT] Add telseq "a software that estimates telomere length "
#1665 opened Sep 26, 2024 by lindenb • Review required
6 of 11 tasks
Add deepsomatic tool
#1647 opened Sep 10, 2024 by vaxyzek • Review required
11 tasks
8
Asmultipcf implementation for multi-sample ASCAT CNV calling
#1646 opened Sep 4, 2024 by alexanderchang1 • Review required
8 tasks done
2
add_dysgu_sarek
#1590 opened Jul 11, 2024 by poddarharsh15 • Review required
11 tasks
14
vardictjava variant calling workflow
#1582 opened Jul 3, 2024 by eolaniru Loading…
11 tasks
13
ProTip! What’s not been updated in a month: updated:<2025-03-27.