Author | Lightnews

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.

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Reposted by Jan Aerts

EMBL-EBI Training @training.ebi.embl.org · Jun 25

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

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.

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Jan Aerts @janaerts.bsky.social · Jun 10

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...

aida-lab.be

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Jan Aerts @janaerts.bsky.social · May 16

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

Trump's sanctions on ICC prosecutor have halted tribunal's work

Nearly three months ago, U.S. President Donald Trump slapped sanctions on the International Criminal Court's chief prosecutor, Karim Khan.

apnews.com

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Jan Aerts @janaerts.bsky.social · Apr 18

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

FLASC: a flare-sensitive clustering algorithm

Exploratory data analysis workflows often use clustering algorithms to find groups of similar data points. The shape of these clusters can provide meaningful information about the data. For example, a...

peerj.com

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Reposted by Jan Aerts

barqueira @lbarqueira.bsky.social · Apr 8

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

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Jan Aerts @janaerts.bsky.social · Apr 1

Als dit een 1 april grap is, gaat ze toch zwaar over de schreef. Als het geen 1 april grap is: idem.

Reposted by Jan Aerts

Stephen Turner @stephenturner.us · Mar 24

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...

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Jan Aerts @janaerts.bsky.social · Mar 24

Thanks Chris. That looks like a good start. Let me know if you find more :-)

Jan Aerts @janaerts.bsky.social · Mar 24

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!

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Jan Aerts @janaerts.bsky.social · Mar 12

If you're a biologist interested in data visualisation, check out the vizbi conference www.linkedin.com/events/vizbi... #omics

VIZBI 2025: 15th international meeting on Visualising Biological Data | LinkedIn

VISUALIZING BIOLOGICAL DATA. Join us 8-11 April online or in-person at the University of Cambridge for VIZBI 2025, the 15th international meeting on Visualising Biological Data. Pre-register now at ht...

www.linkedin.com

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Reposted by Jan Aerts

Inception Labs @inceptionlabs.bsky.social · Feb 26

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.

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Jan Aerts @janaerts.bsky.social · Mar 6

On how to use #mistral #llm to talk to your #zotero library: www.youtube.com/watch?v=x34I...

Jan Aerts @janaerts.bsky.social · Feb 24

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_...

storage.googleapis.com

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Jan Aerts @janaerts.bsky.social · Feb 18

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

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Reposted by Jan Aerts

Helena Klara Jambor @helenajambor.bsky.social · Feb 17

📊 & 🧪

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...

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Reposted by Jan Aerts

EMBL-EBI Training @training.ebi.embl.org · Feb 4

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 🧪

Course at EMBL-EBI
Data visualisation for biology
24 - 26 June 2025
Hinxton, United Kingdom

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Jan Aerts @janaerts.bsky.social · Jan 15

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.

The relationships between three hypothesis spaces, formalized using the author's proposed hypothesis grammar.

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Jan Aerts @janaerts.bsky.social · Jan 13

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

Data visualisation for biology -

www.ebi.ac.uk

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