nf-core/newsletter, November 2025

Blog posts

• nf-core core team retreat - September 2025 — Updates from the nf-core core team retreat.
  20 Oct 2025 · by christopher-hakkaart

  

• nf-core/tools - 3.4.0 — Container regex-it
  16 Oct 2025 · by mashehu, mirpedrol

  

Pipeline releases

• nf-core/ampliseq v2.15.0 (6 Oct 2025)
• nf-core/bacass v2.5.0 (17 Oct 2025)
• nf-core/demultiplex v1.7.0 (28 Oct 2025)
• nf-core/funcscan v3.0.0 (4 Oct 2025)
• nf-core/mag v5.1.0 (27 Oct 2025)
• nf-core/molkart v1.2.0 (27 Oct 2025)
• nf-core/proteinfamilies v2.0.0 (17 Oct 2025)
• nf-core/reportho v1.1.0 (21 Oct 2025)
• nf-core/sarek v3.6.0, v3.6.1 (24 Oct 2025)
• nf-core/scrnaseq v4.1.0 (30 Oct 2025)
• nf-core/viralrecon v3.0.0 (28 Oct 2025)

Upcoming events

• Talk Bytesize: The Nextflow plugin registry — 11 Nov 2025
  Phil Ewels, Seqera
• Talk #animal-genomics: Meeting — 19 Nov 2025
  Ekaterina Osipova (Harvard University)
• Talk Bytesize: nf-core pipeline template walk through V2 — 25 Nov 2025
  Júlia Mir Pedrol, CRG
• Talk Bytesize: topic channels in nf-core/modules — 2 Dec 2025
  Nicolas Vannieuwkerke, Center for Medical Genetics Ghent
• Training Introduction to nf-core/airrflow — 4 Dec 2025
  Introductory practical workshop to nf-core/airrflow
• Talk Bytesize: nf-core/reportho — 9 Dec 2025
  Igor Trujnara, Institute for Research in Biomedicine / Barcelona Supercomputing Center, Barcelona

In case you missed it

Recent events

• #animal-genomics: October Meeting — 15 Oct 2025 (Talk )
• Hackathon - October 2025 (Barcelona) — 28 Oct 2025 – 29 Oct 2025 (Hackathon )
• Bytesize: nf-core/mag v5.0 — 28 Oct 2025 (Talk )

Earlier blog posts

• Running nf-core pipelines on Google Colab — 2 Sept 2025
• Maintainers Minutes: August 2025 — 31 Aug 2025
• Why are my pipeline download tests failing? — 28 Aug 2025
• Introducing nf-core Advisories — 21 Aug 2025
• Empowering bioinformatics communities with Nextflow and nf-core — 6 Aug 2025

Earlier advisories

• HIGH Final family representative sequences are faulty in proteinfamilies pipeline 1.3.0 — 29 Sept 2025

New pipelines & proposals

New pipeline repositories

• nf-core/seqsubmit (in development) — nf-core pipeline for data submission to ENA

Pipeline proposals

From nf-core/proposals.

• nf-core/gwasgeneassociationtesting — Accepted (# 90)
• nf-core/provacseq — Accepted (# 82)
• nf-core/proteindesign — Accepted (# 81)
• nf-core/mspepid — Accepted (# 78)
• nf-core/scalpel — New (# 96)
• nf-core/tandemrepeat — New (# 94)
• nf-core/cosimflow — New (# 93)
• nf-core/swgsrelate — New (# 92)

Other proposals

• New special interest group: ontologies — New (# 95)
• New RFC: nf-core should have a policy about use of LLMs/AI — New (# 91)