nf-core/newsletter, November 2022

New pipeline first releases 🎉

These pipelines just had their very first release.

• nf-core/demultiplex v1.0.0 — Demultiplexing pipeline for sequencing data
• nf-core/hgtseq v1.0.0 — A pipeline to investigate horizontal gene transfer from NGS data

Pipeline releases

• nf-core/chipseq v2.0.0 (3 Oct 2022)
• nf-core/cutandrun v3.0 (27 Oct 2022)
• nf-core/hlatyping v2.0.0 (18 Oct 2022)
• nf-core/nascent v2.0.0 (24 Oct 2022)
• nf-core/scrnaseq v2.1.0 (6 Oct 2022)
• nf-core/smrnaseq v2.1.0 (24 Oct 2022)

Upcoming events

• Talk Bytesize: nf-core/nascent — 1 Nov 2022
  Edmund Miller - University of Texas at Dallas, USA
• Talk Bytesize: Configuring lint tests — 8 Nov 2022
  Phil Ewels, Seqera labs
• Talk Bytesize: using custom scripts in Nextflow pipelines — 15 Nov 2022
  Chris Hakkaart, Seqera labs
• Talk Bytesize: Subworkflows — 22 Nov 2022
  Maxime Garcia, Seqera labs
• Talk Bytesize: Working with GitHub using VSCode and Github CLI — 29 Nov 2022
  Phil Ewels, Seqera labs
• Talk Bytesize: nf-test — 6 Dec 2022
  Edmund Miller, University of Texas at Dallas

In case you missed it

Recent events

• nf-core Training - October 2022 — 3 Oct 2022 – 5 Oct 2022 (Training )
• Hackathon - October 2022 (Barcelona) — 10 Oct 2022 – 12 Oct 2022 (Hackathon )
• Bytesize: nf-core/airrflow — 25 Oct 2022 (Talk )

New pipelines & proposals

New pipeline repositories

• nf-core/callingcards — A pipeline for processing calling cards data
• nf-core/differentialabundance — Differential abundance analysis for feature/ observation matrices from platforms such as RNA-seq
• nf-core/sammyseq (in development) — Pipeline for Sequential Analysis of MacroMolecules accessibilitY sequencing (SAMMY-seq) data, to analyze chromatin state.