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Pull requests: nf-core/modules

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Pull requests list

Swap gem2 to topics size/m
#11330 opened Apr 28, 2026 by SPPearce Contributor Loading…
17 tasks
fix(trimgalore): split reads emit into reads_se / reads_pe (alternative)
#11329 opened Apr 28, 2026 by pinin4fjords Member • Draft
2 of 4 tasks
Swap clair3 back to biocontainer and bump to v2.0.1 size/s
#11327 opened Apr 28, 2026 by SPPearce Contributor • Draft
1
feat: add stub blocks to 41 modules (#4570)
#11323 opened Apr 27, 2026 by HReed1 Loading…
4 of 12 tasks
@HReed1
3
fix(trimgalore): pin output globs to finals only, exclude PE intermediates
#11317 opened Apr 27, 2026 by pinin4fjords Member • Draft
1 of 3 tasks
fix(trimgalore): isolate --paired intermediates in a subdir
#11315 opened Apr 27, 2026 by pinin4fjords Member • Draft
1 of 2 tasks
new module for downloading hmmdb for bigslice
#11313 opened Apr 27, 2026 by SkyLexS Contributor Loading…
13 of 17 tasks
7
fix(modules): replace invalid touch .gz stubs with valid gzip
#11312 opened Apr 26, 2026 by HReed1 Loading…
4 tasks done
1
@HReed1
10
added pcne module
#11307 opened Apr 25, 2026 by riccabolla • Draft
17 tasks
@riccabolla
11
nf-core-module-dev claude init attempt for hifiadapterfilt size/m
#11306 opened Apr 25, 2026 by vagkaratzas Contributor Loading…
12 of 17 tasks
1
[Won't merge] Codex checkpoint - to compare against Claude size/m
#11305 opened Apr 25, 2026 by vagkaratzas Contributor • Draft
17 tasks
bots pair programming social experiment - deletion of duplicate logic subworkflows + conversation size/l
#11303 opened Apr 24, 2026 by vagkaratzas Contributor • Draft
[DO NOT MERGE] test new character-level diffs
#11299 opened Apr 24, 2026 by mashehu Contributor Loading…
Add new module gatk4/cleansam size/l
#11288 opened Apr 24, 2026 by sofiademmou Contributor Loading…
12 of 17 tasks
1
New module: modkit/extract/calls
#11286 opened Apr 24, 2026 by sahuno Loading…
9 tasks done
New module: modkit/extract/full
#11285 opened Apr 24, 2026 by sahuno Loading…
9 tasks done
New module: modkit/validate
#11284 opened Apr 24, 2026 by sahuno Loading…
9 tasks done
New module: modkit/entropy
#11283 opened Apr 24, 2026 by sahuno Loading…
9 tasks done
Migrate hlala to topic channels and bump version
#11282 opened Apr 23, 2026 by jonasscheid Contributor Loading…
10 of 14 tasks
2
Add module: Percolator
#11273 opened Apr 23, 2026 by julianu Contributor Loading…
12 of 17 tasks
18
Improve mirtop stats script with GFF check
#11262 opened Apr 22, 2026 by d-jch Contributor Loading…
2
RFC: document GPU container variants in meta.yml (ribodetector) size/s
#11259 opened Apr 22, 2026 by pinin4fjords Member • Draft
bots add new module for svdss/index size/m
#11253 opened Apr 21, 2026 by vagkaratzas Contributor Loading…
13 of 17 tasks
1
16
fix seqkit sample for paired-end reads size/s
#11249 opened Apr 21, 2026 by bounlu Contributor Loading…
1
Make rundbcan/easysybstract synteny_pdf as optional, version topics upgrade, bump version size/l
#11242 opened Apr 20, 2026 by jfy133 Member • Draft
17 tasks
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