Issues

• ivar/trim directs log info to stderr resulting in blank log files

  bug
  nf-core/modules#13499 · Filter by author cjjossart opened on Oct 29, 2026

• new module: WormCat/batch, WormCat/enrich

  new module
  nf-core/modules#13497 · Filter by author DanHUMassMed opened on Oct 29, 2026
  

• new module: fairbioheaders (combine, verify, convert, validate)

  nf-core/modules#13491 · Filter by author adamjohnwright opened on Oct 29, 2026
  1

• new modules for metaSMASH, as an efficient alternative to antiSMASH

  new module
  nf-core/modules#13489 · Filter by author amizeranschi opened on Oct 29, 2026

• new module: fgumi/realign

  new module
  nf-core/modules#13488 · Filter by author matthdsm opened on Oct 29, 2026
  1

• new module: spectre/cnvcaller

  new module
  nf-core/modules#13481 · Filter by author DylanMHouse opened on Oct 28, 2026
  

• new subworkflow: fasta_binning_metabinner

  new subworkflow
  nf-core/modules#13463 · Filter by author vagkaratzas opened on Oct 26, 2026

• new module: metabinner/metabinner

  new module
  nf-core/modules#13462 · Filter by author vagkaratzas opened on Oct 26, 2026

• new module: metabinner/genkmer

  new module
  nf-core/modules#13461 · Filter by author vagkaratzas opened on Oct 26, 2026

• update module: SAWFISH/JOINTCALL

  update module
  nf-core/modules#13437 · Filter by author alkc opened on Oct 22, 2026
  

• update module: SAWFISH/DISCOVER

  update module
  nf-core/modules#13436 · Filter by author alkc opened on Oct 22, 2026
  

• bam_telomere_estimation: TELOMEREHUNTER runs for only one sample (combine() yields a single-item queue channel)

  nf-core/modules#13434 · Filter by author adamrtalbot opened on Oct 21, 2026
  1

• Tests should create fixture files with collectFile instead of writing to launchDir or moduleDir

  good first issue
  nf-core/modules#13423 · Filter by author mahesh-panchal opened on Oct 20, 2026
  2

• Track modules that still ship a Dockerfile

  nf-core/modules#13412 · Filter by author vagkaratzas opened on Oct 19, 2026

• new module: tchem/detect and tchem/fetchlists

  nf-core/modules#13385 · Filter by author artymisterJ opened on Oct 18, 2026

• Update blat to seqera containers

  hackathon2026
  nf-core/modules#13346 · Filter by author Tabea01 opened on Oct 16, 2026
  

• Update blast to seqera containers

  hackathon2026
  nf-core/modules#13340 · Filter by author Tabea01 opened on Oct 16, 2026
  

• Update bftools to seqera containers

  hackathon2026
  nf-core/modules#13313 · Filter by author Tabea01 opened on Oct 16, 2026
  

• Seqera Container failing for gridss/somaticfilter

  bug
  nf-core/modules#13272 · Filter by author mribeirodantas opened on Oct 16, 2026
  1

• Update gridss/annotate, gridss/assemble, gridss/call, gridss/extractoverlappingfragments, gridss/generateponbedpe, gridss/gridss, gridss/preprocess, gridss/somaticfilter to use Seqera Containers

  hackathon2026
  Task

  nf-core/modules#13265 · Filter by author mribeirodantas opened on Oct 16, 2026
  

• Update module bamutil to seqera container

  hackathon2026
  nf-core/modules#13230 · Filter by author Tabea01 opened on Oct 15, 2026
  

• Migrate remaining Biocontainers modules to Seqera Containers

  hackathon2026
  Task

  nf-core/modules#13143 · Filter by author mribeirodantas opened on Oct 13, 2026

• Wrong URL for nf-core documentation

  bug
  nf-core/modules#13113 · Filter by author OlivierCoen opened on Oct 9, 2026

• update module: KRAKEN2/* 2.1.6 -> 2.17.2

  update module
  nf-core/modules#13078 · Filter by author fanninpm opened on Oct 2, 2026
  1

• jellyfish/count crashes on paired-end input

  bug
  nf-core/modules#13048 · Filter by author ScottNortonPhD opened on Sep 28, 2026