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Pull requests: nf-core/modules

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Pull requests list

feat(comebin/runcomebin): add GPU support, fix outputs and add a real test
#12796 opened Aug 25, 2026 by dialvarezs Member • Draft
9 of 11 tasks
Migrate staramr/search Ready for Review
#12795 opened Aug 25, 2026 by atrigila Contributor Loading… Adopt topic channels in all nf-core modules
1
@atrigila
1
Migrate srst2 Ready for Review
#12794 opened Aug 25, 2026 by atrigila Contributor Loading… Adopt topic channels in all nf-core modules
1
@atrigila
1
Migrate stadeniolib/scramble Ready for Review
#12793 opened Aug 25, 2026 by atrigila Contributor Loading… Adopt topic channels in all nf-core modules
1
@atrigila
1
Migrate spatyper Ready for Review
#12791 opened Aug 25, 2026 by atrigila Contributor Loading… Adopt topic channels in all nf-core modules
1
@atrigila
1
migrate nft-bam tests to nft-utils size/xl
#12790 opened Aug 25, 2026 by matthdsm Contributor Loading…
17 tasks
28
Swap stecfinder to topics size/m
#12785 opened Aug 25, 2026 by SPPearce Contributor Loading…
17 tasks
1
feat: add split and merge modules and bump snapshots for latest versions
#12774 opened Aug 22, 2026 by chaitanyakasaraneni Contributor Loading…
12 of 17 tasks
1
Migrate custom/pcaclustering, custom/clustermetrics and custom/clustervisualization
#12771 opened Aug 21, 2026 by dbaku42 Contributor Loading…
4 tasks done
@dbaku42
13
Hyphy meme
#12769 opened Aug 21, 2026 by leapicard Contributor Loading…
11 of 17 tasks
1
5
Update to topic sigprofiler Do not merge yet
#12764 opened Aug 20, 2026 by LouisLeNezet Contributor Loading…
17 tasks
1
@LouisLeNezet
2
Migrate starfusion/build to topics size/l
#12748 opened Aug 18, 2026 by mribeirodantas Member Loading…
17 tasks
1
@mribeirodantas
16
Add basic subworkflow for unzipping and indexing fasta Ready for Review size/l
#12663 opened Aug 12, 2026 by DLBPointon Contributor Loading…
12
Remove fixed UMI-tools seeds and fix UMICollapse jar discovery Do not merge yet
#12662 opened Aug 12, 2026 by pinin4fjords Member Loading…
3
Add STRAGLR module
#12644 opened Aug 10, 2026 by lukejroche Loading…
2 tasks
1
1
Update to topic qualimap
#12625 opened Aug 7, 2026 by LouisLeNezet Contributor Loading…
17 tasks
1
@LouisLeNezet
6
Provide .fna support for pbmm2/align
#12602 opened Aug 6, 2026 by stvdsomp Loading…
6 tasks done
4
fix probe-set inclusion assertion size/m
#12601 opened Aug 6, 2026 by fmalmeida Contributor Loading…
1
@fmalmeida
3
Update to topic phyloflash Do not merge yet
#12577 opened Aug 4, 2026 by LouisLeNezet Contributor • Draft
17 tasks
1
@LouisLeNezet
1
Add subworkflow for gridss somatic structural variant calling Ready for Review
#12574 opened Aug 4, 2026 by imsarath Contributor Loading…
14 of 17 tasks
1
@imsarath
8
Swap repeatmodeler to topics conda-fail size/m
#12513 opened Aug 3, 2026 by SPPearce Contributor • Draft
17 tasks
2
Swap repeatmasker to topics conda-fail size/m
#12506 opened Aug 3, 2026 by SPPearce Contributor • Draft
2
Update nvcr.io/nvidia/tensorflow Docker tag to v20.12 size/xs
#12488 opened Aug 1, 2026 by renovate Bot Loading…
2 tasks
Update dependency prettier to v3.9.6 size/xs
#12487 opened Aug 1, 2026 by renovate Bot Loading…
2 tasks
Migrate amulety to topics gpu module uses GPU help wanted Extra attention is needed
#12481 opened Jul 31, 2026 by atrigila Contributor • Draft Adopt topic channels in all nf-core modules
4
ProTip! Updated in the last three days: updated:>2026-08-22.