Jan Aerts
@janaerts.bsky.social
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
... and jazz
Running the Augmented Intelligence for Data Analytics Lab http://aida-lab.be
Trying to emulate Paul Desmond on alto
Reposted by Jan Aerts
Now this is how you detect whether an election was stolen. Humans choose rounder numbers.
by @TheEconomist
by @TheEconomist
November 6, 2025 at 9:55 AM
Now this is how you detect whether an election was stolen. Humans choose rounder numbers.
by @TheEconomist
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
doi.org/10.21203/rs.... #topologicaldataanalysis #TDA #topicmodelling #latentdirichletallocation
Unveiling tomato root-associated bacterial interactions responding to hairy root disease
Background: Hairy root disease (HRD), caused by rhizogenic Agrobacterium strains, is a significant disease threat to modern hydroponic greenhouses, which can result in up to 15% loss in yield. Our pri...
doi.org
September 22, 2025 at 9:15 AM
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
doi.org/10.21203/rs.... #topologicaldataanalysis #TDA #topicmodelling #latentdirichletallocation
‘Big pharma’ kraakt complexe biologie dankzij Belgische software van Aspect Analytics www.tijd.be/ondernemen/f...
‘Big pharma’ kraakt complexe biologie dankzij Belgische software van Aspect Analytics
Het Limburgse Aspect Analytics tankt 10 miljoen euro voor de ontwikkeling van zijn software om weefselstalen te analyseren. ‘Zeven van de grootste twintig farmabedrijven zijn klant.’
www.tijd.be
September 10, 2025 at 12:30 PM
‘Big pharma’ kraakt complexe biologie dankzij Belgische software van Aspect Analytics www.tijd.be/ondernemen/f...
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.
July 1, 2025 at 1:39 PM
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.
Reposted by Jan Aerts
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
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
June 25, 2025 at 3:02 PM
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
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...
aida-lab.be
June 10, 2025 at 3:56 PM
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
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
May 16, 2025 at 4:40 PM
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
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
April 18, 2025 at 9:59 AM
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
Reposted by Jan Aerts
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
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
April 8, 2025 at 7:13 PM
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
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
Reposted by Jan Aerts
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...
March 24, 2025 at 6:30 PM
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...
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 know of good examples, let me know!
March 24, 2025 at 3:52 PM
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
March 12, 2025 at 10:03 PM
If you're a biologist interested in data visualisation, check out the vizbi conference www.linkedin.com/events/vizbi... #omics
Reposted by Jan Aerts
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.
February 26, 2025 at 8:51 PM
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.
March 6, 2025 at 7:59 AM
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/coscientist_...
storage.googleapis.com
February 24, 2025 at 9:51 AM
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/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
February 18, 2025 at 3:05 PM
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
Reposted by Jan Aerts
📊 & 🧪
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...
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...
February 17, 2025 at 12:44 PM
📊 & 🧪
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...
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...
Reposted by Jan Aerts
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 🧪
Some financial assistance is available - see course website for more info.
#dataviz 🧪
February 4, 2025 at 9:19 AM
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 🧪
Some financial assistance is available - see course website for more info.
#dataviz 🧪
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.
arxiv.org/abs/2204.14267 This will definitely go into my #dataviz course, and can anchor several of the discussions we have with collaborators.
January 15, 2025 at 8:26 PM
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.
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
www.ebi.ac.uk/training/eve...
#biovis #viz #dataviz
Data visualisation for biology -
Data visualisation for biology -
www.ebi.ac.uk
January 13, 2025 at 1:56 PM
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
www.ebi.ac.uk/training/eve...
#biovis #viz #dataviz
A generalised paradigm for composable visualisations in python #dataviz I'll definitely be checking this out.
genomebiology.biomedcentral.com/articles/10....
genomebiology.biomedcentral.com/articles/10....
Marsilea: an intuitive generalized paradigm for composable visualizations - Genome Biology
Biological data visualization is challenged by the growing complexity of datasets. Traditional single-data plots or simple juxtapositions often fail to fully capture dataset intricacies and interrelat...
genomebiology.biomedcentral.com
January 11, 2025 at 5:19 PM
A generalised paradigm for composable visualisations in python #dataviz I'll definitely be checking this out.
genomebiology.biomedcentral.com/articles/10....
genomebiology.biomedcentral.com/articles/10....
Interesting paper by van den Brandt (TU/e): "Understanding Visualization Authoring Techniques for
Genomics Data in the Context of Personas and Tasks" ieeexplore.ieee.org/stamp/stamp.... #omics #dataviz #biovis
Genomics Data in the Context of Personas and Tasks" ieeexplore.ieee.org/stamp/stamp.... #omics #dataviz #biovis
IEEE Xplore Full-Text PDF:
ieeexplore.ieee.org
December 8, 2024 at 10:18 AM
Interesting paper by van den Brandt (TU/e): "Understanding Visualization Authoring Techniques for
Genomics Data in the Context of Personas and Tasks" ieeexplore.ieee.org/stamp/stamp.... #omics #dataviz #biovis
Genomics Data in the Context of Personas and Tasks" ieeexplore.ieee.org/stamp/stamp.... #omics #dataviz #biovis
Reposted by Jan Aerts
Just realized BlueSky allows sharing valuable stuff cause it doesn't punish links. 🤩
Let's start with "What are embeddings" by @vickiboykis.com
The book is a great summary of embeddings, from history to modern approaches.
The best part: it's free.
Link: vickiboykis.com/what_are_emb...
Let's start with "What are embeddings" by @vickiboykis.com
The book is a great summary of embeddings, from history to modern approaches.
The best part: it's free.
Link: vickiboykis.com/what_are_emb...
November 22, 2024 at 11:13 AM
Just realized BlueSky allows sharing valuable stuff cause it doesn't punish links. 🤩
Let's start with "What are embeddings" by @vickiboykis.com
The book is a great summary of embeddings, from history to modern approaches.
The best part: it's free.
Link: vickiboykis.com/what_are_emb...
Let's start with "What are embeddings" by @vickiboykis.com
The book is a great summary of embeddings, from history to modern approaches.
The best part: it's free.
Link: vickiboykis.com/what_are_emb...
Reposted by Jan Aerts
Look who's here
@pnas.org ✔️
@science.org ✔️
@naturecellbiology.bsky.social ✔️
@natrevgenet.bsky.social ✔️
@naturebiotech.bsky.social ✔️
@naturemicrobiol.bsky.social ✔️
@naturechemistry.bsky.social ✔️
@genesdev.bsky.social ✔️
@cellchembiol.bsky.social ✔️
@genomeresearch.bsky.social ✔️
@jcellbiol.bsky.social ✔️
@pnas.org ✔️
@science.org ✔️
@naturecellbiology.bsky.social ✔️
@natrevgenet.bsky.social ✔️
@naturebiotech.bsky.social ✔️
@naturemicrobiol.bsky.social ✔️
@naturechemistry.bsky.social ✔️
@genesdev.bsky.social ✔️
@cellchembiol.bsky.social ✔️
@genomeresearch.bsky.social ✔️
@jcellbiol.bsky.social ✔️
November 25, 2024 at 1:47 PM
Look who's here
@pnas.org ✔️
@science.org ✔️
@naturecellbiology.bsky.social ✔️
@natrevgenet.bsky.social ✔️
@naturebiotech.bsky.social ✔️
@naturemicrobiol.bsky.social ✔️
@naturechemistry.bsky.social ✔️
@genesdev.bsky.social ✔️
@cellchembiol.bsky.social ✔️
@genomeresearch.bsky.social ✔️
@jcellbiol.bsky.social ✔️
@pnas.org ✔️
@science.org ✔️
@naturecellbiology.bsky.social ✔️
@natrevgenet.bsky.social ✔️
@naturebiotech.bsky.social ✔️
@naturemicrobiol.bsky.social ✔️
@naturechemistry.bsky.social ✔️
@genesdev.bsky.social ✔️
@cellchembiol.bsky.social ✔️
@genomeresearch.bsky.social ✔️
@jcellbiol.bsky.social ✔️