nf-core/newsletter, September 2023

New pipeline first releases 🎉

These pipelines just had their very first release.

• nf-core/pangenome v1.0.0 — Renders a collection of sequences into a pangenome graph. https://doi.org/10.1093/bioinformatics/btae609.

Pipeline releases

• nf-core/atacseq v2.1.2 (7 Aug 2023)
• nf-core/cutandrun v3.2 (31 Aug 2023)
• nf-core/funcscan v1.1.3 (11 Aug 2023)
• nf-core/scrnaseq v2.4.0 (24 Aug 2023)

Upcoming events

• Talk Bytesize: Setting up a gitpod environment — 5 Sept 2023
  Marcel Ribeiro-Dantas, Seqera Labs
• Training Community Foundational Nextflow Training - September 2023 — 6 Sept 2023 – 8 Sept 2023
  The primary Nextflow / nf-core training for beginners, with 3 x 2.5 hour sessions.
• Talk Bytesize: A beginners guide to nf-core — 12 Sept 2023
  Franziska Bonath, National Genomics Infrastructure, Stockholm
• Talk Bytesize: Using Wave Containers — 19 Sept 2023
  Marcel Ribeiro-Dantas, Seqera Labs
• Training Hands-on Nextflow Training - September 2023 — 20 Sept 2023
  A fast way to get up and running with Nextflow - hands on and light on theory. One 2 hour session.
• Training Community Advanced Nextflow Training - September 2023 — 27 Sept 2023 – 28 Sept 2023
  Join us for the first ever Advanced community training! Become a Nextflow expert!
• Talk Bytesize: The new nf-core website — 3 Oct 2023
  Matthias Hörtenhuber, Scilifelab Data Center
• Talk Bytesize: Using nf-core configs in custom pipelines — 10 Oct 2023
  Judith Ballesteros, Max Planck Institute for evolutionary anthropology
• Talk Nextflow in Action — 12 Oct 2023
  Tree of Life, Wellcome Sanger Institute and Genomics England
• Hackathon Hackathon - October 2023 (Barcelona) — 16 Oct 2023 – 18 Oct 2023
  A hybrid hackathon held in Barcelona and online
• Talk Bytesize: nf-core/viralintegration — 24 Oct 2023
  Alyssa Briggs, The University of Texas at Dallas
• Talk Bytesize: Converting pytest modules to nf-test — 31 Oct 2023
  Adam Talbot (Seqera) and Sateesh Peri (MemVerge)

New pipelines & proposals

New pipeline repositories

• nf-core/diseasemodulediscovery (in development) — A pipeline for network-based disease module identification.
• nf-core/drugresponseeval — Pipeline for testing drug response prediction models in a statistically and biologically sound way.