nf-core/newsletter, March 2025

Blog posts

• Maintainers Minutes: February 2025 — Keeping you informed of the latest maintainers discussions
  28 Feb 2025 · by jfy133

  

• Integrating ontologies into nf-core modules — Getting onto the right path
  24 Feb 2025 · by mirpedrol, mashehu

  

New pipeline first releases 🎉

These pipelines just had their very first release.

• nf-core/fastqrepair v1.0.0 — A pipeline that can be used to recover corrupted FASTQ.gz files, drop or fix uncompliant reads, remove unpaired reads, and settles reads that became disordered
• nf-core/pacvar vv1.0.0 — Longread PacBio sequencing processing for WGS and PureTarget
• nf-core/proteinfamilies v1.0.0 — Generation and updating of protein families
• nf-core/variantbenchmarking v1.0.0 — Pipeline to evaluate and validate the accuracy of variant calling methods in genomic research

Pipeline releases

• nf-core/demultiplex v1.6.0 (19 Feb 2025)
• nf-core/mag v3.3.1 (13 Feb 2025)
• nf-core/metatdenovo v1.1.0 (26 Feb 2025)
• nf-core/multiplesequencealign v1.1.0 (21 Feb 2025)
• nf-core/pairgenomealign v2.0.0 (5 Feb 2025)
• nf-core/pangenome v1.1.3 (9 Feb 2025)
• nf-core/phyloplace v2.0.0 (21 Feb 2025)
• nf-core/raredisease v2.3.0, v2.4.0 (24 Feb 2025)
• nf-core/riboseq v1.1.0 (3 Feb 2025)
• nf-core/sarek v3.5.1 (18 Feb 2025)
• nf-core/viralmetagenome v0.1.2 (28 Feb 2025)

Upcoming events

• Talk Bytesize: nf-core/multiplesequencealign — 4 Mar 2025
  Luisa Santus, PhD candidate at the Centre for Genomic Regulation (CRG)
• Training Nextflow Training Week - March 2025 — 10 Mar 2025 – 14 Mar 2025
  Join the new `Hello Nextflow` training and more online
• Talk #animal-genomics: March Meeting — 19 Mar 2025
  Christopher Tuggle (Iowa State University, USA)
• Hackathon Hackathon - March 2025 (Online / Distributed) — 24 Mar 2025 – 26 Mar 2025
  A virtual hackathon with local sites to develop nf-core together
• Talk Bytesize: nf-core/variantbenchmarking — 1 Apr 2025
  Kübra Narci, German Human Genome-Penome Archieve, DKFZ Heidelberg
• Talk Bytesize: nf-core/proteinfamilies — 8 Apr 2025
  Evangelos Karatzas, EMBL-EBI, Cambridge
• Talk #animal-genomics: April Meeting — 16 Apr 2025
  Damir Baranasic (MRC, London Institute of Medical Sciences, UK)

In case you missed it

Recent events

• Bytesize: nf-core/smrnaseq — 11 Feb 2025 (Talk )
• #animal-genomics: February Meeting — 19 Feb 2025 (Talk )
• Bytesize: data science operations (DSO) — 25 Feb 2025 (Talk )

Earlier blog posts

• Maintainers Minutes: January 2025 — 31 Jan 2025
• nf-core/tools - 3.1.0 — 10 Dec 2024

New pipelines & proposals

New pipeline repositories

• nf-core/mitodetect (in development) — A-Z analysis of mitochondrial NGS data
• nf-core/ribomsqc — QC pipeline that monitors mass spectrometer performance in ribonucleoside analysis
• nf-core/sopa (in development) — Nextflow version of Sopa - spatial omics pipeline and analysis