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Pull requests: nf-core/modules

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Pull requests list

feat: update samtools stats module with version topic support
#9330 opened Nov 1, 2025 by mribeirodantas Loading…
17 tasks
1
@mribeirodantas
2
chore(deps): update biocontainers/chromap docker tag to v0.2.7
#9325 opened Nov 1, 2025 by renovate bot Loading…
2 tasks
chore(deps): update biocontainers/checkm-genome docker tag to v1.2.4
#9324 opened Nov 1, 2025 by renovate bot Loading…
2 tasks
chore(deps): update biocontainers/annosine2 docker tag to v2.0.9
#9323 opened Nov 1, 2025 by renovate bot Loading…
2 tasks
chore(deps): update dependency nextflow-io/nextflow to v25
#9320 opened Oct 31, 2025 by renovate bot Loading…
2 tasks
chore(deps): update pre-commit hook python-jsonschema/check-jsonschema to v0.34.1
#9319 opened Oct 31, 2025 by renovate bot Loading…
2 tasks
chore(deps): update pre-commit hook hadolint/hadolint to v2.14.0
#9318 opened Oct 31, 2025 by renovate bot Loading…
2 tasks
chore(deps): update pre-commit hook astral-sh/ruff-pre-commit to v0.14.3
#9317 opened Oct 31, 2025 by renovate bot Loading…
2 tasks
chore(deps): update dependency seqeralabs/wave-cli to v1.6.1
#9316 opened Oct 31, 2025 by renovate bot Loading…
2 tasks
Add pbcpgtools/alignedbamtocpgscores module
#9312 opened Oct 31, 2025 by inemesb Loading…
11 of 17 tasks
1
5
Added module samtools/samples Ready for Review
#9311 opened Oct 31, 2025 by Schmytzi Loading…
11 of 17 tasks
1
8
Add fq2bam fq align dd bwamem
#9309 opened Oct 30, 2025 by eduard-watchmaker Loading…
17 tasks
8
Restructuring how symlinks work to avoid conflicts with file permissions
#9308 opened Oct 30, 2025 by gburnett-nvidia Loading…
17 tasks
Vcf vembrane
#9305 opened Oct 29, 2025 by trangdo-hsc Loading…
12 of 17 tasks
9
fix: gprofiler2 output files missing gene names in intersection columns #497 good first issue Good for newcomers
#9304 opened Oct 29, 2025 by mohe1linux Loading…
@mohe1linux
Prior cons buildpriors [DRAFT]
#9300 opened Oct 29, 2025 by zhliUU Loading…
1 of 3 tasks
Add priorcons module [DRAFT]
#9299 opened Oct 29, 2025 by GERMAN00VP Loading…
12 of 17 tasks
Add pcgr/getref module
#9295 opened Oct 29, 2025 by famosab Loading…
17 tasks
1
feat: addition of vembrane sort module
#9294 opened Oct 29, 2025 by mkatsanto Loading…
12 of 13 tasks
1
@mkatsanto @trangdo-hsc
8
Add nf-co2footprint plugin for emissions tracking
#9293 opened Oct 29, 2025 by edmundmiller Loading…
4 tasks
1
@edmundmiller
Vembrane filter
#9290 opened Oct 29, 2025 by trangdo-hsc Loading…
12 of 17 tasks
@mkatsanto @trangdo-hsc
15
Add stub tests to kraken2/kraken2 nf-core module
#9289 opened Oct 29, 2025 by fischer-hub Loading…
11 of 17 tasks
1
Update Bracken to accept separate Kraken2 build files to prevent symlink in symlink issues
#9288 opened Oct 29, 2025 by jfy133 Loading…
17 tasks
1
trim_galore version
#9276 opened Oct 28, 2025 by yadavbha Loading…
17 tasks
4
Add Autocycler subtool modules (subsample, compress, cluster, trim, resolve, combine)
#9274 opened Oct 28, 2025 by dwells-eit Loading…
11 of 13 tasks
1
14
ProTip! What’s not been updated in a month: updated:<2025-10-01.