nf-core/newsletter, October 2024

Blog posts

• Migration from Biocontainers to Seqera Containers: Part 1 — What Seqera Containers is and why we want to move to it.
  17 Sept 2024 · by ewels, edmundmiller

  

Pipeline releases

• nf-core/fastquorum v1.0.1 (11 Sept 2024)
• nf-core/funcscan v2.0.0 (5 Sept 2024)
• nf-core/isoseq v2.0.0 (5 Sept 2024)
• nf-core/raredisease v2.2.0 (13 Sept 2024)
• nf-core/rnaseq v3.15.0, v3.15.1 (16 Sept 2024)
• nf-core/sarek v3.4.4 (3 Sept 2024)

Upcoming events

• Bytesize Bytesize: Animating subway maps — 1 Oct 2024
  <p>Maxime Garcia, Seqera</p>
• Bytesize Bytesize: Making Pipeline level tests with nf-test — 8 Oct 2024
  <p>Maxime Garcia, Seqera</p>
• Talk #regulatory - monthly meeting — 15 Oct 2024
  <p>Round table in regulatory led by Alex Peltzer (Boehringer Ingelheim Pharma GmbH)</p>
• Talk #animal-genomics: October Meeting — 16 Oct 2024
  <p>Roderic Guigó (CRG, Spain)</p>
• Hackathon Hackathon - October 2024 (Barcelona) — 28 Oct 2024 – 30 Oct 2024
  <p>An in-person hackathon held in Barcelona</p>
• Bytesize Bytesize: Special Interest Group - Animal Genomics — 12 Nov 2024
  <p>Cedric Notredame (CRG, Barcelona), Björn Langer (CRG, Barcelona), Francesca Bernini (UNIMI, Milan), Jose Espinosa-Carrasco (CRG, Barcelona)</p>
• Talk #regulatory - monthly meeting — 12 Nov 2024
  <p>Round table in regulatory led by Alex Peltzer (Boehringer Ingelheim Pharma GmbH)</p>
• Talk CANCELLED: #animal-genomics: November Meeting — 20 Nov 2024
  <p><del>Harris Lewin (Arizona State University, USA)</del></p>

In case you missed it

Recent events

• Bytesize: Special Interest Group meta-omics — 3 Sept 2024 (Bytesize)
• #regulatory: Where do we stand and where do we want to go? — 9 Sept 2024 (Talk)
• Bytesize: Excalidraw — 17 Sept 2024 (Bytesize)
• #animal-genomics: September Meeting — 18 Sept 2024 (Talk)
• Bioimage Analysis Workshop - September 2024 (Tübingen) — 26 Sept 2024 – 27 Sept 2024 (Hackathon)

Earlier blog posts

• Maintainers Minutes: September 2024 — 30 Aug 2024
• Maintainers Minutes: August 2024 — 14 Aug 2024
• A gentle introduction to nf-core/reportho — 18 Jul 2024
• nf-core/callingcards - first release! — 17 Jul 2024
• Maintainers Minutes: July 2024 — 3 Jul 2024
• Faster nf-core website builds — 3 Jul 2024

New pipelines & proposals

New pipeline repositories

• nf-core/fastqrepair — 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/genomeqc — Compare the quality of multiple genomes, along with their annotations.
• nf-core/pacvar — Longread PacBio sequencing processing for WGS and PureTarget