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Pull requests: nf-core/modules

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135 Open 7,549 Closed
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Pull requests list

Update CheckM modules to 1.2.5 and topic conversion
#10374 opened Mar 9, 2026 by jfy133 Loading…
17 tasks
2
feat(modules): add updhmm/vcfcheck
#10369 opened Mar 9, 2026 by saraamenasantamaria Loading…
12 of 17 tasks
1
@yocra3 @saraamenasantamaria
8
chopper: bump version and migrate to topics
#10368 opened Mar 8, 2026 by dialvarezs Loading…
4 of 17 tasks
6
Update blobtk for PyPi version 0.7.12 size/s
#10355 opened Mar 6, 2026 by DLBPointon Loading…
4
update module: vcf2zarr/convert
#10354 opened Mar 6, 2026 by camlloyd Loading…
3 of 17 tasks
1
Add module saltshaker/call
#10353 opened Mar 6, 2026 by ieduba Loading…
17 tasks
7
Add SVIM module Ready for Review
#10350 opened Mar 6, 2026 by nourmahfel Loading…
17 tasks
1
11
Update module Sparsesignatures
#10345 opened Mar 6, 2026 by valerianilucrezia Loading…
11 tasks done
1
docs(modkit/pileup): clarify BAM index, BED format, and --cpg requirements
#10341 opened Mar 6, 2026 by sahuno Loading…
3 of 4 tasks
3
add module mat2json Ready for Review
#10340 opened Mar 5, 2026 by CaroAMN Loading…
14 tasks
1
@CaroAMN
3
[WIP]I have added orthofinder 3 as a separate module WIP Work in progress
#10338 opened Mar 5, 2026 by chriswyatt1 Loading…
10 of 17 tasks
1
@chriswyatt1
14
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…
5 of 17 tasks
1
5
feat(stardist): update to Seqera Containers GPU image with model input
#10332 opened Mar 4, 2026 by an-altosian Loading…
2 of 3 tasks
6
Add new module sentieoncli/dnascopelongread size/m size/s
#10321 opened Mar 3, 2026 by alkc • Draft
22 tasks
1
[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
Rmats prep PR
#10128 opened Feb 23, 2026 by akaviaLab Loading…
13 tasks done
1
13
Add MacSyFinder modules for model management and protein system detection size/l size/xl
#10074 opened Feb 17, 2026 by Copilot AI Loading…
1
@brovolia
29
Migrate hmtnote to topic versions
#10062 opened Feb 16, 2026 by emmadizdarevic • Draft
17 tasks
ProTip! What’s not been updated in a month: updated:<2026-02-10.