nf-core/newsletter, September 2025

Blog posts

• Maintainers Minutes: August 2025 — Keeping you informed of the latest maintainers discussions
  31 Aug 2025 · by maxulysse

  

• Why are my pipeline download tests failing? — Refurbishing the pipeline downloads command
  28 Aug 2025 · by ErikDanielsson, mirpedrol, MatthiasZepper

  

• Introducing nf-core Advisories — Timely technical issue alerts, no matter how remote you are.
  21 Aug 2025 · by MatthiasZepper

  

• Empowering bioinformatics communities with Nextflow and nf-core — Next nf-core scientific article now published in Genome Biology!
  6 Aug 2025 · by maxulysse, jfy133, JoseEspinosa, mashehu, christopher-hakkaart

  

New pipeline first releases 🎉

These pipelines just had their very first release.

• nf-core/longraredisease vv1.0.0-alpha — Long read sequencing pipeline to identify variants in patients with neurodevelopmental disorders

Pipeline releases

• nf-core/denovotranscript v1.2.1 (28 Aug 2025)
• nf-core/detaxizer v1.2.0 (7 Aug 2025)
• nf-core/metatdenovo v1.3.0 (29 Aug 2025)
• nf-core/methylseq v4.1.0 (10 Aug 2025)
• nf-core/pairgenomealign v2.2.1 (18 Aug 2025)
• nf-core/proteinfamilies v1.3.0 (6 Aug 2025)
• nf-core/rnaseq v3.20.0 (18 Aug 2025)
• nf-core/rnavar v1.1.1, v1.2.0 (27 Aug 2025)
• nf-core/taxprofiler v1.2.4 (28 Aug 2025)

Upcoming events

• Talk Bytesize: nf-core/createtaxdb — 9 Sept 2025
  James Fellows Yates, Leibniz-HKI
• Talk Bytesize: RFCs — 16 Sept 2025
  Phil Ewels, Seqera
• Talk #animal-genomics: September Meeting — 17 Sept 2025
  Brenda Murdoch & Temitayo Olangunju (University of Idaho, USA)
• Talk #animal-genomics: October Meeting — 15 Oct 2025
  Daniela Lourenco (University of Georgia, USA)
• Hackathon Hackathon - October 2025 (Barcelona) — 28 Oct 2025 – 29 Oct 2025
  An in-person hackathon held in Barcelona
• Talk Bytesize: nf-core/mag v5.0 — 28 Oct 2025
  Diego Alvarez Saravia, University of Magallanes

In case you missed it

Earlier blog posts

• Maintainers Minutes: July 2025 — 31 Jul 2025
• Meet the new meta.yml — 7 Jul 2025
• nf-core/tools - 3.3 — 3 Jun 2025
• Maintainers Minutes: May 2025 — 3 Jun 2025

New pipelines & proposals

New pipeline repositories

• nf-core/funcprofiler (in development) — Read-based functional profiling of microbiome sequencing data

Pipeline proposals

From nf-core/proposals.

• nf-core/chemclip — Accepted (# 67)
• microfunctprofiler — Accepted (# 59)
• nf-core/nf-segmented — New (# 74)
• nf-core/thetis — New (# 66)

Other proposals

• New RFC: Migrate Subworkflows and Template boilerplate to nf-core-utils plugin — Accepted (# 51)
• nf-core/crispresso — New (# 75)
• New RFC: add nf-co2footprint plugin to the template — New (# 72)
• Make QC steps opt-in — New (# 71)
• New RFC: move storage of nf-core/test-dataset files to another location — New (# 70)
• New RFC: Allow ext.suffix as an official ext. value allowed for use in nf-core/modules — New (# 69)
• New RFC: Add `task.ext.mem_multiplier` to modules — New (# 65)