nf-core/newsletter, March 2024

Blog posts

• nf-core/tools - 2.13.0 — Out with the old, in with the new
  19 Feb 2024 · by mashehu, mirpedrol, drpatelh, maxulysse

  

• core team retreat — Why not come to Stockholm in February? 🥶
  11 Feb 2024 · by FranBonath

  

New pipeline first releases 🎉

These pipelines just had their very first release.

• nf-core/hadge v0.1.0 — Comprehensive pipeline for donor demultiplexing in single cell
• nf-core/metatdenovo v1.0.0 — Assembly and annotation of metatranscriptomic or metagenomic data for prokaryotic, eukaryotic and viruses.
• nf-core/molkart v1.0.0 — A pipeline for processing Molecular Cartography data from Resolve Bioscience (combinatorial FISH)
• nf-core/readsimulator v1.0.0 — A pipeline to simulate sequencing reads, such as Amplicon, Target Capture, Metagenome, and Whole genome data.

Pipeline releases

• nf-core/circdna v1.1.0 (10 Feb 2024)
• nf-core/cutandrun v3.2.2 (1 Feb 2024)
• nf-core/demultiplex v1.4.1 (27 Feb 2024)
• nf-core/eager v2.5.1 (21 Feb 2024)
• nf-core/epitopeprediction v2.3.0 (26 Feb 2024)
• nf-core/fetchngs v1.12.0 (29 Feb 2024)
• nf-core/mag v2.5.2, v2.5.3, v2.5.4 (12 Feb 2024)
• nf-core/pangenome v1.1.0 (28 Feb 2024)
• nf-core/rnasplice v1.0.3 (23 Feb 2024)
• nf-core/smrnaseq v2.3.0 (23 Feb 2024)
• nf-core/taxprofiler v1.1.5 (8 Feb 2024)

Upcoming events

• Training Community Foundational Nextflow Training - March 2024 — 5 Mar 2024 – 6 Mar 2024
  An online Community Foundational Nextflow training event
• Talk Bytesize: nf-core/metatdenovo — 12 Mar 2024
  Danilo Di Leo, Linné­universitetet
• Hackathon Hackathon - March 2024 (Online) — 18 Mar 2024 – 20 Mar 2024
  A virtual hackathon with local sites to develop nf-core together
• Talk #animal-genomics: Inaugural Meeting — 17 Apr 2024
  Christa Kühn, Friedrich Loeffler Institute

In case you missed it

Recent events

• Bytesize: nf-core/differentialabundance — 6 Feb 2024 (Talk )
• Bytesize: Contributing to Nextflow — 13 Feb 2024 (Talk )
• Bytesize: nf-core Special Interest Groups — 20 Feb 2024 (Talk )
• Bytesize: Removing the 'lib/' directory from the template — 27 Feb 2024 (Talk )

Earlier blog posts

• nf-core/tools - 2.12.0 — 28 Jan 2024
• Hello nf-core world — 12 Jan 2024

New pipelines & proposals

New pipeline repositories

• nf-core/datasync (in development) — nf-core/datasync is a system operation pipeline that provides several workflows for handling system operation / automation tasks
• nf-core/reportho — nf-core pipeline for comparative analysis of ortholog predictions
• nf-core/tumourevo (in development) — Analysis pipeline to model tumour clonal evolution from WGS data (driver annotation, quality control of copy number calls, subclonal and mutational signature deconvolution)