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Pull requests: nf-core/modules

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173 Open 9,147 Closed
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Pull requests list

update module: SuShiE
#12847 opened Aug 29, 2026 by camlloyd Member Loading…
3 of 17 tasks
1
New module: custom/collectfeaturecounts
#12846 opened Aug 29, 2026 by erikrikarddaniel Member Loading…
4 tasks done
Update to add flag for dot replacement Ready for Review size/m
#12843 opened Aug 28, 2026 by DLBPointon Contributor Loading…
Add pcaone module
#12841 opened Aug 28, 2026 by dbaku42 Contributor Loading…
feat: update hisat2 modules for strict syntax
#12838 opened Aug 28, 2026 by maxulysse Member Loading…
4 tasks done
smncopynumbercaller: add optional fasta input for CRAM support
#12834 opened Aug 27, 2026 by gustav-001 Loading…
10 of 12 tasks
Add STAR Suite alignment and genome generation modules
#12826 opened Aug 27, 2026 by lhhunghimself Loading…
11 of 12 tasks
1
12801 bug in gsea module related with multiple gene sets processing size/s
#12821 opened Aug 26, 2026 by brovolia Contributor Loading…
1
14
Add parabricks/deepsomatic size/m
#12797 opened Aug 26, 2026 by SPPearce Contributor • Draft
3
Migrate starfusion/build to topics size/l
#12748 opened Aug 18, 2026 by mribeirodantas Member Loading…
17 tasks
1
@mribeirodantas
16
Remove fixed UMI-tools seeds Do not merge yet
#12662 opened Aug 12, 2026 by pinin4fjords Member Loading…
5
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
11
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 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
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
24
Migrate narfmap/hashtable to topic channels
#12445 opened Jul 27, 2026 by xHaMMaDy Contributor Loading…
13 tasks done
1
19
fix(qualimap) Fix for errors in qualimap when memory is set to null
#12441 opened Jul 27, 2026 by bigbigdumdum Loading…
2 of 11 tasks
4
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