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Pull requests: nf-core/modules

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Pull requests list

RSeQC split_bam.py module implementation
#9536 opened Dec 9, 2025 by rhassaine Loading…
14 tasks done
@rhassaine
8
Bump ichorCNA package build in ichorcna/createpon and ichorcna/run
#9531 opened Dec 9, 2025 by lbeltrame Loading…
2 of 17 tasks
@lbeltrame
4
remove topics from multiqc
#9530 opened Dec 9, 2025 by nvnieuwk Loading…
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
Update xenium ranger modules and subworkflows
#9525 opened Dec 8, 2025 by an-altosian Loading…
11 of 17 tasks
17
Update GLIMPSE sbwf Ready for Review update subworkflow
#9524 opened Dec 8, 2025 by LouisLeNezet Loading…
17 tasks
@LouisLeNezet
Add draft of FASTQ_REMOVE_ADAPTERS_AND_MERGE subworkflow with tests
#9521 opened Dec 8, 2025 by kornkv Loading…
bump vcf2maf to ensembl-vep=113.4 and update containers
#9515 opened Dec 6, 2025 by JustinBellavance Loading…
17 tasks
2
Add strdrop/call
#9513 opened Dec 6, 2025 by fellen31 Loading…
17 tasks
4
Assemblyscan 1.0.0
#9506 opened Dec 4, 2025 by eit-maxlcummins Loading…
10 tasks done
Get conda envs
#9504 opened Dec 4, 2025 by mirpedrol Loading…
Add module picard/collectvariantcallingmetrics new module Adding a new module Ready for Review
#9502 opened Dec 4, 2025 by georgiakes Loading…
11 of 16 tasks
1
7
update bclconvert with topic
#9494 opened Dec 2, 2025 by matthdsm Loading…
17 tasks
1
RiboCode - prepare_transcripts, metaplots, ribocode
#9485 opened Dec 1, 2025 by JackCurragh Loading…
11 of 17 tasks
1
13
plastid metagene_generate, make_wiggle, psite
#9482 opened Dec 1, 2025 by suhrig Loading…
12 of 14 tasks
31
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 test path modification
#9465 opened Nov 26, 2025 by LouisLeNezet Loading…
17 tasks
@LouisLeNezet
1
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
Add minimac4 imputation subworkfllow new subworkflow
#9451 opened Nov 25, 2025 by LouisLeNezet Loading…
17 tasks
@LouisLeNezet
Add quilt imputation subworkflow new subworkflow
#9443 opened Nov 24, 2025 by LouisLeNezet Loading…
8 of 17 tasks
@LouisLeNezet
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
Refactor GAWK implicit closures
#9435 opened Nov 21, 2025 by DLBPointon Loading…
Update glimpse2 imputation subworkflow Ready for Review subworkflows update module update subworkflow
#9434 opened Nov 20, 2025 by LouisLeNezet Loading…
8 of 17 tasks
@LouisLeNezet
5
New module: whatshap/phase
#9431 opened Nov 19, 2025 by HaidYi Loading…
12 of 17 tasks
1
@HaidYi
22
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