Jasper Spitzer

You're supposed to use the accessor functions and the obj@slot notation officially is just for internal use iirc

⏰Reminder: EuroBioC2026 Call for Abstracts

Submissions are open for short talks, posters, and workshops. We encourage you to share your work at EuroBioC2026.

🗓 Deadline: 30 January 2026

👉 Submit your abstract: openreview.net/group?id=bio...

#EuroBioC2026 #Bioconductor #Bioinformatics

A headline: Scientists have discovered a 'third state' between life and death

"Postdoc in the job market"

Group picture with all participants at EuroBioC2025

Vince Carey, Bioconductor project lead, giving the opening keynote lecture.

Audience carefully listening to Vince Carey in the Auditorium.

Christophe Vanderaa giving a workshop on msqrob2, a robust modelling workflow for mass spectrometry-based proteomics

#EuroBioC2025 is over and it has been a blast! Thanks to all participants that came to @prbb.org for contributing to make such an enjoyable event and special thanks to the support from our sponsors, the organizing institutions @upf.edu @isglobal.org and the European @bioconductor.bsky.social Society

The American Chopper argument meme except it's Tom Bombadil poems vs the other guy saying how out of place those are

One of the best memes ever.

PhD Timeline xkcd.com/3081

What about the cases where they seem useful? These seem to fall into a few categories:

1) I need to take a set of notes and turn it into a polished document, and I'm in a position to check that it says what I mean.

Ok fine but writing is thinking and you're letting that muscle atrophy.

>>

what

A local synteny visualization with 3 genes across 4 genotypes.

Using my Tidyverse local synteny visualization tools first time in 3 months. This a biosynthetic gene cluster with 2 P450s and a O-methyltransferase. Visualized across assemblies for 4 cultivars.

GitHub: github.com/cxli233/Tidy...

Transformers and genome language models - Nature Machine Intelligence Micaela Consens et al. discuss and review the recent rise of transformer-based and large language models in genomics. They also highlight promising directions for genome language models beyond the tra...

🔥 Unveiling the Future of Genomics with Genome Language Models (gLMs)! 🔥

Our comprehensive review, "Transformers and genome language models," is finally published in Nature Machine Intelligence! ​

Link: nature.com/articles/s42...

Expect more funding programmes and recruitment drives taking this into focus

Digital sovereignty – Huber Group @ EMBL The US is now a mafia-style extortionist you want to stay away from

It's time for individuals and organizations in Europe and other democratic countries to move mission- or life-critical IT services and infrastructure outside the reach of the US government; noting that US tech companies have already largely subordinated themselves.

www.huber.embl.de/group/posts/...

C. elegans has just 302 neurons

Three AI-powered steps to faster, smarter peer review Tired of spending countless hours on peer reviews? An AI-assisted workflow could help.

Let's talk about this Nature piece in more detail.

I've rarely read something so anti-scientific anywhere short of the National Review.

www.nature.com/articles/d41...

solution of advent of code day 2: is.safe <- function(VEC){ vec_inc <- sort(VEC) vec_dec <- sort(VEC, decreasing = T) ordered = identical(VEC, vec_inc) | identical(VEC, vec_dec) offset <- lag(VEC)[-1] diffs <- VEC[-1] - offset fine <- all(diffs != 0 & abs(diffs) < 4) safe <- ordered & fine return(safe) } is.safe.damp <- function(VEC){ pure <- is.safe(VEC) if(pure){ return(pure) } dampened <- logical(length = length(VEC)) for (index in 1:length(VEC)) { dampened[index] = is.safe(VEC[-index]) if(dampened[index]){ return(dampened[index]) } } return(F) } map(input_clean, is.safe) %>% unlist() %>% sum() map(input_clean, is.safe.damp) %>% unlist() %>% sum()

I just completed "Red-Nosed Reports" - Day 2 - Advent of Code 2024 #AdventOfCode adventofcode.com/2024/day/2