@janaerts
Professor interested in data visualisation, especially in biology (omics, biodiversity, etc) ... and jazz Running the Augmented Intelligence for Data Analytics Lab http://aida-lab.be Trying to emulate Paul Desmond on alto
A Computer Scientist in a Business School: Fighting Fire with Fire: Scalable Personalized Oral Exams with an ElevenLabs Voice AI Agent www.behind-the-enemy-lines.com/2025/12/figh...
The eXplainable Artificial Intelligence (XAI) Triad: Models, Importances, and Significance at Scale www.biorxiv.org/content/10.6... 🧬🖥️🧪
Bioconductor #Rstats pkg: www.bioconductor.org/packages/XAI...
Source: github.com/GhislainFiev...
OK. Combining #logseq with #gemini_cli may finally be a way to really use it as an external memory. "I think I have scattered different ideas that I needed to remember across all my notes. Can you list them?"
Next year's halloween, I will either dress as MS Sharepoint, or a VCF file.
A scatter plot titled "Fair and square? Russian federal elections, 2000-21" which visualizes the results of Russian federal elections. The x-axis represents voter turnout in percentage, ranging from 0 to 100%. The y-axis represents the percentage of votes for Putin, Medvedev, or the United Russia party, also ranging from 0 to 100%. Each dot on the plot represents a polling station. A cluster of dots appears in the upper right corner, indicating high voter turnout and a high percentage of votes for the specified candidates. A dashed rectangle highlights a grid-like pattern of dots at numbers ending in zero and five, with an annotation suggesting this pattern indicates potential foul play. The source is cited as Kobak and Shpilkin (2021).
Now this is how you detect whether an election was stolen. Humans choose rounder numbers.
by @TheEconomist
Our latest paper now accessible in preprint: how we used a #visualanalytics approach to dig deeper into the #microbiome of hairy root disease in tomato
doi.org/10.21203/rs.... #topologicaldataanalysis #TDA #topicmodelling #latentdirichletallocation
A nice intro to #marimo, the #jupyter alternative
codecut.ai/marimo-a-mod... #python #datascience
‘Big pharma’ kraakt complexe biologie dankzij Belgische software van Aspect Analytics www.tijd.be/ondernemen/f...
That's a good start. Something similar does not exist for biological journals, I'm afraid.
Yes, but many/most papers don't reference them anymore because they've become more common.
Correction: any "useful" idea appreciated with a beer "in person".
Dear interwebs. We're trying to find out how many scientific papers use a specific visual, e.g. upset or circos. Any ideas on how to identify these? A search for the term doesn't work because it is not always named. Also: a simple picture search seems too limited. Any ideas appreciated with a beer.
A group of people sit on stone steps outside an office building. They smile to the camera. Under them reads the text: Course at EMBL-EBI. Data visualisation for biology. 24 - 26 June 2025. EMBL's European Bioinformatics Institute. Hinxton, UK.
Thank you to all the organisers and participants for joining us at @ebi.embl.org for this week's data visualisation for biology course.
Sign up for updates on 'Introduction to multi-omics data integration and visualisation' 2026 course: www.ebi.ac.uk/training/eve...
@janaerts.bsky.social
#dataviz
In preparation for a #dataviz course at the @training.ebi.embl.org later this month, I've created a cheatsheet for creating custom SVG images in #marimo #python. If anyone finds errors: let me know! aida-lab.be/assets/marim...
Being dependent on US services has become a clear liability. The head prosecutor of the International Criminal Court has lost access to his email (apnews.com/article/icc-...). Can #kuleuven move towards open source / EU software? cc @tinebaelmans.bsky.social #kuleuven #ict
Our latest paper is out: peerj.com/articles/cs-.... We added functionality to the #HDBSCAN clustering algorithm to also detect branches hdbscan.readthedocs.io/en/latest/ho... #eda #datavis #clustering
Eigenvalues of a parameterized 4×4 matrix
Each point corresponds to a non-real eigenvalue of a matrix of the form:
[[0, 0, -1, -1],
[1, -1, 0, 0],
[0, 1, A, 0],
[1, 0, -1, B]]
where A and B are independently drawn from a continuous uniform distribution on (−3, 3).
#mathart #Mathematics #p5js
Als dit een 1 april grap is, gaat ze toch zwaar over de schreef. Als het geen 1 april grap is: idem.
SpatialRNA: a Python package for easy application of Graph Neural Network models on single-molecule spatial transcriptomics dataset www.biorxiv.org/content/10.1... 🧬🖥️🧪 github.com/pyg-team/pyt...
Thanks Chris. That looks like a good start. Let me know if you find more :-)
For a #dataviz course I'm looking for scientific images in #SVG that could be improved by different colour schemes, removing unnecessary elements, better fonts, titles, etc. The students in the course can then use #inkscape to improve those images.
If you know of good examples, let me know!
If you're a biologist interested in data visualisation, check out the vizbi conference www.linkedin.com/events/vizbi... #omics
We are excited to introduce Mercury, the first commercial-grade diffusion large language model (dLLM)! dLLMs push the frontier of intelligence and speed with parallel, coarse-to-fine text generation.
On how to use #mistral #llm to talk to your #zotero library: www.youtube.com/watch?v=x34I...
Google's AI co-scientist and similar tools may disrupt scientific research even more than AI is already doing. We'll still have to see how it pans out, but we'll need to be prepared. Also: not everyone will have the same access to these tools!
storage.googleapis.com/coscientist_...
Just released a first version of my #graph #anywidget at pypi.org/project/grap... for displaying (and brushing) force-directed node-link diagrams in #marimo. With a little help from @manzt.sh
📊 & 🧪
Join the #DataViz for #LifeScience course at EMBL-EBI! Organised by Jan Aerts/Ryo Sakai, this year with my Keynote! :)
--> Application due March 9th
www.ebi.ac.uk/training/eve...
Course at EMBL-EBI Data visualisation for biology 24 - 26 June 2025 Hinxton, United Kingdom
If you would like to gain knowledge and practical experience in how to use data visualisation tools to gain insights into complex biological data, apply for this course by 9 March: www.ebi.ac.uk/training/eve...
Some financial assistance is available - see course website for more info.
#dataviz 🧪
The relationships between three hypothesis spaces, formalized using the author's proposed hypothesis grammar.
Very interesting paper: "A Grammar of Hypotheses for Visualization, Data, and Analysis", by Remco Chang's group
arxiv.org/abs/2204.14267 This will definitely go into my #dataviz course, and can anchor several of the discussions we have with collaborators.
Are you a biologist interested in data visualisation to help you explore complex data or create effective visuals? If so, make sure to register for the course that we're organising at the EBI in June
www.ebi.ac.uk/training/eve...
#biovis #viz #dataviz