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Pull requests: nf-core/modules

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Pull requests list

Swap rgi to topics size/l
#12667 opened Aug 13, 2026 by SPPearce Contributor • Draft
Upgrade to hifitrimmer 5.0.0
#12666 opened Aug 13, 2026 by sainsachiko Contributor Loading…
17 tasks
5
Add basic subworkflow for unzipping and indexing fasta Ready for Review size/m
#12663 opened Aug 12, 2026 by DLBPointon Contributor Loading…
1
Remove fixed UMI-tools seeds and fix UMICollapse jar discovery Ready for Review
#12662 opened Aug 12, 2026 by pinin4fjords Member Loading…
3
Deprecate quartonotebook module in favour of quarto/notebook
#12659 opened Aug 12, 2026 by fasterius Contributor • Draft
2 of 4 tasks
Update to topic raxmlng
#12647 opened Aug 10, 2026 by LouisLeNezet Contributor Loading…
17 tasks
1
@LouisLeNezet
Add STRAGLR module
#12644 opened Aug 10, 2026 by lukejroche Loading…
2 tasks
1
1
refactor: parameterise optitype module and update to 1.5.0
#12641 opened Aug 9, 2026 by SpikyClip Loading…
10 of 11 tasks
Update to topic qualimap
#12625 opened Aug 7, 2026 by LouisLeNezet Contributor Loading…
17 tasks
1
@LouisLeNezet
Provide .fna support for pbmm2/align
#12602 opened Aug 6, 2026 by stvdsomp Loading…
6 tasks done
3
fix probe-set inclusion assertion size/m
#12601 opened Aug 6, 2026 by fmalmeida Contributor Loading…
1
@fmalmeida
2
Fix 103 dead documentation links in module meta.yml
#12581 opened Aug 4, 2026 by karpovantonme Loading…
3 tasks done
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
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
updated module: xengsort/index Ready for Review
#12494 opened Aug 2, 2026 by LeonHornich Contributor Loading…
10 of 13 tasks
8
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
Migrate universc versions topic container-issue Ready for Review
#12479 opened Jul 31, 2026 by atrigila Contributor Loading… Adopt topic channels in all nf-core modules
canvas/germline: Added tests and missing inputs, some cleanup Ready for Review
#12462 opened Jul 29, 2026 by Schmytzi Contributor Loading…
9 of 17 tasks
23
docs(orfnormalise): correct the GTF contract for rpbp and price Ready for Review
#12453 opened Jul 28, 2026 by pinin4fjords Member Loading…
3
Update bcftools/consensus/main.nf
#12449 opened Jul 28, 2026 by unholyparrot Loading…
17 tasks
1
Migrate narfmap/hashtable to topic channels
#12445 opened Jul 27, 2026 by xHaMMaDy Contributor Loading…
13 tasks done
1
14
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