nf-core/newsletter, November 2023

New pipeline first releases 🎉

These pipelines just had their very first release.

• nf-core/pixelator v1.0.0, v1.0.1 — Pipeline to generate Proximity Network Assay data with Pixelator (Pixelgen Technologies AB)
• nf-core/rnasplice v1.0.0 — rnasplice is a bioinformatics pipeline for RNA-seq alternative splicing analysis

Pipeline releases

• nf-core/airrflow v3.2.0 (27 Oct 2023)
• nf-core/ampliseq v2.7.0 (19 Oct 2023)
• nf-core/bacass v2.1.0 (24 Oct 2023)
• nf-core/bamtofastq v2.1.0 (6 Oct 2023)
• nf-core/cutandrun v3.2.1 (25 Oct 2023)
• nf-core/differentialabundance v1.3.0, v1.3.1 (27 Oct 2023)
• nf-core/fetchngs v1.10.1, v1.11.0 (18 Oct 2023)
• nf-core/mag v2.5.0 (10 Oct 2023)
• nf-core/methylseq v2.5.0 (18 Oct 2023)
• nf-core/mhcquant v2.5.0 (10 Oct 2023)
• nf-core/sarek v3.3.2 (4 Oct 2023)
• nf-core/scrnaseq v2.4.1 (2 Oct 2023)
• nf-core/taxprofiler v1.1.1, v1.1.2 (27 Oct 2023)

Upcoming events

• Talk Bytesize: nf-core/pangenome — 7 Nov 2023
  Simon Heumos, QBiC, University of Tübingen
• Talk Bytesize: The Art of a Minimal Example — 14 Nov 2023
  Phil Ewels (Seqera)
• Hackathon Hackathon - November 2023 (Boston) — 28 Nov 2023 – 29 Nov 2023
  An in-person hackathon held in Boston
• Talk Nextflow Symposium 2023 — 4 Dec 2023
  A hybrid symposium held on Wellcome Genome Campus in Cambridge and online
• Talk Bytesize: git concepts — 12 Dec 2023
  Edmund Miller, The University of Texas at Dallas

In case you missed it

Recent events

• Bytesize: The new nf-core website — 3 Oct 2023 (Talk )
• Bytesize: Using nf-core configs in custom pipelines — 10 Oct 2023 (Talk )
• Nextflow in Action — 12 Oct 2023 (Talk )
• Hackathon - October 2023 (Barcelona) — 16 Oct 2023 – 18 Oct 2023 (Hackathon )
• Bytesize: nf-core/viralintegration — 24 Oct 2023 (Talk )
• Bytesize: Converting pytest modules to nf-test — 31 Oct 2023 (Talk )

New pipelines & proposals

New pipeline repositories

• nf-core/createtaxdb — Parallelised and automated construction of metagenomic classifier databases of different tools
• nf-core/detaxizer — A pipeline to identify (and remove) certain sequences from raw genomic data. Default taxon to identify (and remove) is Homo sapiens. Removal is optional.
• nf-core/rangeland — Pipeline for remotely sensed imagery. The pipeline processes satellite imagery alongside auxiliary data in multiple steps to arrive at a set of trend files related to land-cover changes.
• nf-core/riboseq — Pipeline for the analysis of ribosome profiling, or Ribo-seq (also named ribosome footprinting) data.