nf-core/newsletter, July 2024

Blog posts

• nf-core/fastquorum - first release! — The nf-core fgbio Best Practices FASTQ to Consensus Pipeline
  22 Jun 2024 · by nh13

  

• Introducing nf-core office hours — A new initiative - weekly drop-in sessions to connect and work together.
  13 Jun 2024 · by christopher-hakkaart

  

• Maintainers Minutes: June 2024 — Keeping you informed of the latest maintainers discussions
  7 Jun 2024 · by jfy133

  

New pipeline first releases 🎉

These pipelines just had their very first release.

• nf-core/demo v1.0.0 — nf-core/demo is a simple nf-core style bioinformatics pipeline for workshops and demos.
• nf-core/reportho v1.0.0 — nf-core pipeline for comparative analysis of ortholog predictions

Pipeline releases

• nf-core/airrflow v4.1.0 (1 Jun 2024)
• nf-core/ampliseq v2.10.0 (27 Jun 2024)
• nf-core/bacass v2.3.0, v2.3.1 (24 Jun 2024)
• nf-core/crisprseq v2.2.0 (20 Jun 2024)
• nf-core/eager v2.5.2 (28 Jun 2024)
• nf-core/mag v3.0.1 (10 Jun 2024)
• nf-core/mhcquant v2.6.0 (17 Jun 2024)
• nf-core/proteinfold v1.1.0 (25 Jun 2024)
• nf-core/scrnaseq v2.7.0 (25 Jun 2024)
• nf-core/taxprofiler v1.1.8 (20 Jun 2024)

Upcoming events

• Talk #regulatory: Kick Off Meeting — 1 Jul 2024
  Round table led by Alex Peltzer (Boehringer Ingelheim Pharma GmbH)
• Talk Bytesize: the `nf-core download` command — 9 Jul 2024
  Matthias Zepper, National Genomics Infrastructure, Stockholm
• Talk Bytesize: Six tips for community-based pipeline development — 16 Jul 2024
  James A. Fellows Yates, HKI Jena / MPI-EVA Leipzig
• Talk #animal-genomics: July Meeting — 17 Jul 2024
  Cristina Casto Rebollo, Institute for Animal Science and Technology (ICTA), Universitat Politècnica de València, Spain
• Talk Bytesize: nft-bam — 30 Jul 2024
  Nicolas Vannieuwkerke, Center For Medical Genetics Ghent

In case you missed it

Recent events

• Bytesize: Explaining Wave containers — 11 Jun 2024 (Talk )
• #animal-genomics: June Meeting — 19 Jun 2024 (Talk )
• Bytesize: Containers for HPC with Singularity — 25 Jun 2024 (Talk )

Earlier blog posts

• Maintainers Minutes: May 2024 — 13 May 2024
• nf-core/tools - 2.14.0 — 8 May 2024
• nf-core/sarek paper — 24 Apr 2024
• March 2024 Hackathon — 7 Apr 2024
• Special Interest Groups — 2 Apr 2024

New pipelines & proposals

New pipeline repositories

• nf-core/denovotranscript — A pipeline for de novo transcriptome assembly of paired-end short reads from bulk RNA-seq
• nf-core/scdownstream (in development) — A single cell transcriptomics pipeline for QC, integration and making the data presentable