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Pull requests: nf-core/modules

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Pull requests list

RiboCode - add error handling where the cli tool does not
#9581 opened Dec 17, 2025 by JackCurragh Loading…
9 of 17 tasks
Add vcfpgloader/load module
#9579 opened Dec 17, 2025 by Zacharyr41 Loading…
3 tasks done
1
1
rpsblast module and test
#9577 opened Dec 16, 2025 by Ales-ibt Loading…
7 tasks
@Ales-ibt
43
BiG Slice modules for nf-core
#9564 opened Dec 12, 2025 by SkyLexS Loading…
11 of 17 tasks
@SkyLexS
Fix for issue #5021 verifybamid2 module
#9563 opened Dec 12, 2025 by mmYeung Loading…
1
Allow dream to process non-formula contrasts
#9562 opened Dec 11, 2025 by delfiterradas Loading…
17 tasks
1
@delfiterradas
10
fix(bcl_demultiplex): Extract InterOp files from input channel
#9560 opened Dec 11, 2025 by robsyme Loading…
5
Add module t1k/run new module Adding a new module
#9555 opened Dec 11, 2025 by georgiakes Loading…
11 of 16 tasks
6
Update BWA_INDEX memory formula to match BWAMEM2_INDEX pattern
#9528 opened Dec 8, 2025 by Copilot AI • Draft
11 of 17 tasks
1
@edmundmiller
Add draft of FASTQ_REMOVE_ADAPTERS_AND_MERGE subworkflow with tests
#9521 opened Dec 8, 2025 by kornkv Loading…
16
bump vcf2maf to ensembl-vep=113.4 and update containers
#9515 opened Dec 6, 2025 by JustinBellavance Loading…
17 tasks
2
Assemblyscan 1.0.0
#9506 opened Dec 4, 2025 by eit-maxlcummins Loading…
10 tasks done
2
Get conda envs
#9504 opened Dec 4, 2025 by mirpedrol Loading…
update bclconvert with topic
#9494 opened Dec 2, 2025 by matthdsm Loading…
17 tasks
1
Hiphase: bump to version 1.5.0; use wave container; emit phased bam file enhancement New feature or request Ready for Review update module
#9477 opened Nov 28, 2025 by chaochaowong Loading…
12 of 14 tasks
@chaochaowong
fix issue 9424: MultiQC report handling for AWS batch with S3 workDir
#9455 opened Nov 25, 2025 by SZhengP Loading…
3 of 17 tasks
1
fix: kmer env output missing when scientific notation found
#9442 opened Nov 24, 2025 by CormacKinsella Loading…
17 tasks
1
Update output paths in bases2fastq module
#9436 opened Nov 21, 2025 by lucacozzuto Loading…
6 of 16 tasks
Updare fgbio/copyumifromreadname
#9373 opened Nov 10, 2025 by SPPearce • Draft
Add module: TRIDENT_FETCH
#9360 opened Nov 7, 2025 by TCLamnidis Loading…
4 of 20 tasks
5
Vcf vembrane
#9345 opened Nov 5, 2025 by dhtt • Draft
12 of 17 tasks
@dhtt
1
Use tar --no-same-owner option for untar module
#9338 opened Nov 4, 2025 by nathanweeks Loading…
2 of 17 tasks
10
Add fq2bam fq align dd bwamem
#9309 opened Oct 30, 2025 by eduard-watchmaker Loading…
17 tasks
61
Restructuring how symlinks work to avoid conflicts with file permissions
#9308 opened Oct 30, 2025 by gburnett-nvidia Loading…
8 of 17 tasks
1
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
ProTip! Find all pull requests that aren't related to any open issues with -linked:issue.