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Pull requests: nf-core/modules

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Pull requests list

docs(modkit/pileup): clarify BAM index, BED format, and --cpg requirements
#10341 opened Mar 6, 2026 by sahuno Loading…
3 of 4 tasks
2
add module mat2json Ready for Review
#10340 opened Mar 5, 2026 by CaroAMN Loading…
14 tasks
1
@CaroAMN
1
[WIP]I have added orthofinder 3 as a separate module WIP Work in progress
#10338 opened Mar 5, 2026 by chriswyatt1 Loading…
2 of 17 tasks
1
@chriswyatt1
2
New module: reseq/illuminape
#10336 opened Mar 5, 2026 by adamrtalbot • Draft
1
5
Update module: ctree
#10335 opened Mar 5, 2026 by elena-buscaroli Loading…
4 of 17 tasks
1
1
Add updhmm vcfcheck module
#10333 opened Mar 5, 2026 by saraamenasantamaria Loading…
12 of 14 tasks
1
feat(stardist): update to Seqera Containers GPU image with model input
#10332 opened Mar 4, 2026 by an-altosian Loading…
2 of 3 tasks
3
Updating bigslice
#10324 opened Mar 3, 2026 by SkyLexS Loading…
10 of 17 tasks
2
Add new module sentieoncli/dnascopelongread size/m size/s
#10321 opened Mar 3, 2026 by alkc • Draft
22 tasks
1
Update module pyclonevi
#10318 opened Mar 3, 2026 by valerianilucrezia Loading…
8 of 9 tasks
1
9
feat(cellpose): update to v4.0.8 with GPU support
#10306 opened Mar 2, 2026 by an-altosian Loading…
15
[GH-7778] Added matlock/bam2juicer
#10305 opened Mar 2, 2026 by GallVp Loading…
1 of 17 tasks
1
11
new process: picard/samtofastq
#10298 opened Mar 2, 2026 by kelly-sovacool • Draft
9 of 13 tasks
1
12
chore(deps): update dotnet monorepo to v10 (major) size/xs
#10294 opened Mar 2, 2026 by renovate bot Loading…
2 tasks
chore(deps): update quay.io/biocontainers/antismash docker tag to v8.0.4 size/xs
#10289 opened Mar 1, 2026 by renovate bot Loading…
2 tasks
chore(deps): pin quay.io/biocontainers/antismash docker tag to 9977bae size/xs
#10287 opened Mar 1, 2026 by renovate bot Loading…
2 tasks
chore(modules): migrate adapterremoval & adapterremovalfixprefix to new version output format
#10266 opened Feb 25, 2026 by maxcumminsandfred-lab Loading…
3 of 17 tasks
13
chore(modules): migrate abricate/summary to new version output format
#10265 opened Feb 25, 2026 by maxcumminsandfred-lab Loading…
2 of 17 tasks
4
chore(modules): migrate abricate/run to new version output format
#10264 opened Feb 25, 2026 by maxcumminsandfred-lab Loading…
3 of 17 tasks
12
Rmats work in progress PR
#10128 opened Feb 23, 2026 by akaviaLab • Draft
1 of 17 tasks
2
Integrate multiqcsav into bcl_demultiplex subworkflow size/m
#10117 opened Feb 19, 2026 by delfiterradas • Draft
17 tasks
1
@delfiterradas
4
Add MacSyFinder modules for model management and protein system detection size/l size/xl
#10074 opened Feb 17, 2026 by Copilot AI • Draft
1
@brovolia
18
Migrate hmtnote to topic versions
#10062 opened Feb 16, 2026 by emmadizdarevic • Draft
17 tasks
Fix labeler workflow for fork PRs using workflow_run pattern
#10045 opened Feb 16, 2026 by Copilot AI • Draft
@ewels
7
Deacon index set operations
#10027 opened Feb 13, 2026 by pmoris Loading…
17 tasks
2
ProTip! What’s not been updated in a month: updated:<2026-02-05.