Mastodawn

Francesco Strozzi Sep 16, 2023

Jon Keegan Sep 15, 2023

TIL: "In Belgium, every citizen has access to a "digital vault" provided by the government, which is accessible using their ID card. Individuals can upload up to 1GB of documents into this vault. It's a well-designed system that ensures privacy during one's lifetime, but you can choose what happens with it after your passing." https://www.izimi.be/en/ (via https://news.ycombinator.com/item?id=37520374 )

IZIMI : Stay in control of your life

Izimi, the digital safe of Belgian notaries. Your private and secure space for managing your important documents.

IZIMI : Stay in control of your life

Francesco Strozzi May 5, 2023

RT @nextflowio
🔍 Are you looking to optimize the performance of your #Nextflow pipelines? 🚀 Choosing the right storage architecture can make all the difference.

📖 Check out this article for tips to help you make the right decision: http://ow.ly/JgxK50OfN7j

#datastorage #bioinformatics

Selecting the right storage architecture for your Nextflow pipelines | Nextflow

Exploring the pros and cons of various file systems and cloud object stores for your Nextflow pipeline

Francesco Strozzi Apr 15, 2023

Philipp Bayer Apr 11, 2023

'Deep learning of genomic contexts predicts protein co-regulation and function'

https://www.biorxiv.org/content/10.1101/2023.04.07.536042v1

A large language model (19 layer transformer) trained using protein embeddings from 7 million metagenome contigs. Embedding space correlates with functional space

cc @josephguhlin

Francesco Strozzi Mar 24, 2023

RT @nf_core
🚨 IT'S HAPPENING! 🚨 Join us at the #NextflowSummit 2023 for inspiring talks and @nf_core hackathons 🚀

This year we're doing events in both Europe and North America:

🇪🇸 Barcelona - October 16-20
🇺🇸 Boston - November (tbc)

Find details & updates: https://summit.nextflow.io/summit-2023-preregistration/

Nextflow Summit 2023 pre-registration

Nextflow Summit 2022

Francesco Strozzi Mar 23, 2023

Phil Ewels Mar 22, 2023

RT @nextflowio
The first Nextflow commit ^^ was pushed 10 years ago today! Many thanks to everyone in the community for joining us on the ride! #nextflow10

https://github.com/nextflow-io/nextflow/tree/c080150321e5000a2c891e477bb582df07b7f75f

GitHub - nextflow-io/nextflow at c080150321e5000a2c891e477bb582df07b7f75f

A DSL for data-driven computational pipelines. Contribute to nextflow-io/nextflow development by creating an account on GitHub.

GitHub

Francesco Strozzi Mar 22, 2023

Phil Ewels Mar 22, 2023

RT @alex_peltzer
#nextflowhelped me finding so many like minded people that I stopped counting and changed how I work today in bioinformatics! Thanks @PaoloDiTommaso & Team for building and still adding to it & everyone @nf_core for being such a great community ☀️🙌

Francesco Strozzi Mar 13, 2023

James Fellows Yates Mar 13, 2023

📯 A brand new
@nf_core
#nextflow
pipeline for #metagenomics is out!

🧬 Looking to taxonomically classify or profile your short- or long- shotgun metagenomic reads, but don’t know which tool and/or database to use?

🤩 Why not use all with https://nf-co.re/taxprofiler !

[🧵1/8]

taxprofiler » nf-core

Highly parallelised multi-taxonomic profiling of shotgun metagenomic data

Francesco Strozzi Feb 22, 2023

Harshil Patel Feb 22, 2023

Lots of goodies in this release!
---
RT @PaoloDiTommaso
In the other news, @nextflowio February edge release is out! 🎉🎉
https://github.com/nextflow-io/nextflow/releases/tag/v23.02.0-edge
https://twitter.com/PaoloDiTommaso/status/1628416668413165572

Release Version 23.02.0-edge · nextflow-io/nextflow

Add Fusion support for Google Batch (#3577) [d5fbab4] Add Header provider to Google Batch client [2097992] Add Wave integration tests [c5faf97] Add errorStrategy validation [954cd92] Add Java insta...

GitHub

Francesco Strozzi Feb 17, 2023

RT @mdziemann
If you use enrichment analysis in your work, and have not been made aware of this before, stop and read this 2016 piece from @metapredict
https://genomebiology.biomedcentral.com/articles/10.1186/s13059-015-0761-7

Multiple sources of bias confound functional enrichment analysis of global -omics data - Genome Biology

Serious and underappreciated sources of bias mean that extreme caution should be applied when using or interpreting functional enrichment analysis to validate findings from global RNA- or protein-expression analyses.

BioMed Central

Francesco Strozzi Feb 16, 2023

RT @daweonline
Hello tweeps, I need your distributed mind: once I read in a paper that kmers with k=7 are the shortest that can be used to describe a genome in a unique way. I cannot find that paper anymore, did I just imagine that? Can you help me? #askforhelp #Bioinformatics #kmer

LinkedIn	linkedin.com/in/francescostrozzi/
GitHub	github.com/fstrozzi
Orcid	orcid.org/0000-0002-6845-6982