Skip to content

Pull requests: nf-core/sarek

New pull request New
38 Open 1,083 Closed
38 Open 1,083 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
Assigned to nobody Loading
Sort
Sort by
Newest Oldest Most commented Least commented Recently updated Least recently updated Best match
Most reactions
👍 👎 😄 🎉 😕 ❤️ 🚀 👀

Pull requests list

[DRAFT] Changes to UMI processing
#1937 opened Jul 9, 2025 by SPPearce • Draft
2
Add config for readgroups to fq2bam
#1925 opened Jun 17, 2025 by famosab Loading…
11 tasks
3.6
1
5
Refactor to adhere to language server
#1912 opened May 30, 2025 by FriederikeHanssen • Draft
11 tasks
3.6
1
Update ApplyBQSR module to output cram on bam input to fix restart from recalibration
#1911 opened May 30, 2025 by FriederikeHanssen • Draft
11 tasks
1
Add checks for uniqueness of sample ids
#1902 opened May 26, 2025 by famosab Loading…
1 of 11 tasks
3.6
1
9
build: Set process arch for arm64
#1888 opened May 6, 2025 by edmundmiller • Draft
@edmundmiller
2
Collect intervallist channel output and propagate to genotyping step
#1872 opened Apr 24, 2025 by percyfal Loading…
11 tasks
5
Addition of bbsplit for filtering of genomic contaminants
#1850 opened Mar 26, 2025 by apsteinberg Loading…
11 tasks
39
Udate GATK modules - Fix output line lack of specificity
#1839 opened Mar 18, 2025 by johnoooh Loading…
7 of 11 tasks
9
POC: Usage for nf-core/references in nf-core/sarek
#1783 opened Jan 27, 2025 by maxulysse Loading…
11 tasks
1
Modification from NF Language server
#1779 opened Jan 23, 2025 by maxulysse Loading…
11 tasks
3.6
5
Add files via upload - Posters using Sarek
#1773 opened Jan 15, 2025 by mlfalco-bioinfo Loading…
11 tasks
1
feat: Add linting of FASTQ with FQ/LINT
#1763 opened Dec 17, 2024 by adamrtalbot Loading…
11 tasks
5
Use original QC values for Deepvariant after BQSR
#1733 opened Nov 15, 2024 by FriederikeHanssen • Draft
11 tasks
3
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
14
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 Loading…
11 tasks
1
[DRAFT] Add telseq "a software that estimates telomere length "
#1665 opened Sep 26, 2024 by lindenb Loading…
6 of 11 tasks
Add deepsomatic tool
#1647 opened Sep 10, 2024 by vaxyzek Loading…
11 tasks
8
Asmultipcf implementation for multi-sample ASCAT CNV calling
#1646 opened Sep 4, 2024 by alexanderchang1 Loading…
8 tasks done
2
add_dysgu_sarek
#1590 opened Jul 11, 2024 by poddarharsh15 Loading…
11 tasks
14
vardictjava variant calling workflow
#1582 opened Jul 3, 2024 by eolaniru Loading…
11 tasks
14
Split variantannotation in its own pipeline and import it
#1561 opened Jun 11, 2024 by maxulysse Loading…
11 tasks
7
ProTip! Type g p on any issue or pull request to go back to the pull request listing page.