From hackathon to release: sbi v0.25 is here! 🎉 What happens when dozens of SBI researchers and practitioners collaborate for a week? New inference methods, new documentation, lots of new embedding networks, a bridge to pyro and a bridge between flow matching and score-based methods 🤯 1/7 🧵

Sharing this here a bit late, but @vstaros.bsky.social and I wrote a little something about our experience contributing to the @sbi-devs.bsky.social (simulation-based inference) hackathon. @mlcolab.org @mackelab.bsky.social We were obviously very hungry while writing.

My first paper on simulation-based inference (SBI) as part of @mackelab.bsky.social! Exciting work on adapting state-of-the-art foundation models for posterior estimation. Almost plug-and-play, and surprisingly effective. Paper/code in thread below 🧵

I have been genuinely amazed how well tabpfn works as a density estimator, and how helpful this is for SBI ... Great work by @vetterj.bsky.social, Manuel and @danielged.bsky.social!!

Together with #AIMS, the African Institute for Mathematical Sciences, we have an exciting position to fill: The AIMS - Tübingen Junior Research Chair in Machine Learning for Science! 1/2

Come work with us in Tübingen! Our new professor @mariokrenn.bsky.social is looking for PhDs and postdocs! The group builds #AI systems for discovering new concepts, experiments and ideas in #physics. Find out more: uni-tuebingen.de/en/128980#c2... #AIforScience

👨‍💻 Open PI position in our institute 👨‍💻 !! If you are an expert in Computational Neuroscience and want to start your lab in Bordeaux, contact us ! www.fens.org/careers/job-... @neuromagendie.bsky.social @neurobordeaux.bsky.social

Sbi can take you places … very proud about @gmoss13.bsky.social et als work, a wild and serendipitous collaboration made possible by @ml4science.bsky.social!

I always find the figures from the @mackelab.bsky.social really clear and pretty! For example in arxiv.org/abs/2404.09636.

We’ve successfully automated part of the (neuro)scientific process. Now I may be out of a job. After a lot of iterations, here’s our framework for automatic discovery, built to embrace degeneracy and the realities of underconstrained modeling.

magic, by magician @bconfavreux.bsky.social, using a magic SBI-wand conjured with Poornima Ramesh, under the auspices of the wise @tpvogels.bsky.social!

Last month, we organized #ODIN2025 @alleninstitute.org (along w Karel, Saskia @sejdevries.bsky.social , David & Satra) with the theme "Integrating Scales & Modalities". See the videos📣👇 Full playlist: youtube.com/playlist?lis... 🎥 Speaker: alleninstitute.org/odin-symposi... youtu.be/N1IMki0RnIc?...

📢 Amazing speaker in our Neurocolloquium on Wed. May 21 at 4.15pm CEST: Marion Silies @unimainz.bsky.social‬ will talk about "From heterogeneous wiring to degenerative function in motion-detection circuit", live in Tübingen & in Zoom. 🙌 Host: @jakhmack.bsky.social 👉 Sign up: tinyurl.com/32ku5jth

Nice article in the transmitter about connectome-enabled brain models, covering @lappalainenjk.bsky.social’s work with @srinituraga.bsky.social and colleagues!!

We'll present our #ICLR2025 spotlight on ZAPBench this afternoon: 📍 Hall 3 #61!

Most simulators for time-series data (e.g., numerical solvers for differential equations) are Markovian-- this can be exploited for efficient simulation-based inference on time-series data! Talk to Manuel and Shoji at #ICLR2025, or read the paper ⬇️!

Thanks so much for the shout-out, and congrats on your exciting work!! 🎉 🙂 Also, a good reminder to share that our work is now out in Cell Reports 🙏🎊 ⬇️ www.cell.com/cell-reports...

I am not at Cosyne, but @rdgao.bsky.social @auschulz.bsky.social @matthijspals.bsky.social and Zinovia Stefanidi are-- talk to them about their awesome work (and ask them about open positions with us if you are interested...)!

Together with @dendritesgr.bsky.social, we’ll be hosting a tutorial on constructing and optimizing biophysical models (via Jaxley & DendroTweaks) 🚀 Join us in Florence if you like dendrites, biophysics, or optimization!

Out now 'in print'--- a true labor of love, in more ways than one. See the paper and press-release below! Also, go and see @matthijspals.bsky.social's talk at #Cosyne, where he will talk about related/follow up work! uni-tuebingen.de/en/research/...

Wanted to shout out this paper: by @maximiliandax.bsky.social and @stephenrgreen.bsky.social. It allows us to perform parameter inference of binary neutron stars in a second. These binary neutron stars are measured with gravitational waves! Here’s a poster I made for the LVK meeting in Barcelona!

sbi 0.24.0 is out! 🎉 This comes with important new features: - 🎯 Score-based i.i.d sampling - 🔀 Simultaneous estimation of multiple discrete and continuous parameters or data. - 📊: mini-sbibm for quick benchmarking. Just in time for our 1-week SBI hackathon starting tomorrow---stay tuned for more!

Workshop on Foundation Models at Cosyne, also featuring @auschulz.bsky.social!

Amidst all this chaos, a big day for simulation-based inference #SBI, thanks to @maximiliandax.bsky.social + @stephenrgreen.bsky.social et al: SBI for rapid identification of binary neutron star mergers-- even ahead of time, could be used to alert observatories! www.nature.com/articles/d41...

Great work led by @maximiliandax.bsky.social now out in @nature.com: Neural network deciphers gravitational waves from merging neutron stars in a second - new method could be instrumental in preparing the field for the next generation of observatories: is.mpg.de/news/neural-... #AIforScience 1/2

If you use the sbi toolbox, help make it better by sharing your feedback!!

I have big news: @ellis.eu has launched its 2nd major research center, @ellisfinland.bsky.social! I have agreed to start as founding director & the first call for PI positions is open. This is a major opportunity for outstanding researchers, join us! ellisinstitute.fi/PI-recruit

1) Some exciting science in turbulent times: How do mice distinguish self-generated vs. object-generated looming stimuli? Our new study combines VR and neural recordings from superior colliculus (SC) 🧠🐭 to explore this question. Check out our preprint doi.org/10.1101/2024... 🧵

SBI hackathon is back! Join us in Tübingen for the 4th edition, make the toolbox better, brainstorm new direction, have fun!

I sadly won't attend (at least not in person) this year, but it was great fun with great people!

This is cool - using the fly connectome to build a constrained ANN model of the fly visual system: www.nature.com/articles/s41... Nice to see connectomics actually getting used for something... 😜 🧠📈 🧪

I enjoy @markdhumphries.bsky.social's annual review every year-- this year particularly excited for the coverage of fly connectomics, and the shout-out to our paper on our task-trained and connectome-constrained model of the fly visual system @lappalainenjk.bsky.social @srinituraga.bsky.social!

Code release for the `Deep mechanistic network model' of the fruit fly visual system -- with all the works (demos, tutorials, docs, pretrained models, ...), thanks to a great effort by @lappalainenjk.bsky.social!

While we were all resting over the holidays, the wonderful @sbi-devs.bsky.social team, in true 'Heinzelmännchen' spirit, shipped out v0.23.3, with great new features, some of which directly by requests from the community-- check it out!

The Python package sbi is now on conda-forge. github.com/conda-forge/... With @prefix.dev's pixi you can now get a full CUDA environment (pixi.sh/dev/features...) and sbi installed and ready to go in under 60 seconds (maybe under 30) with 3 commands (if you count your text editor as 1).

Just in time for your holiday reading, Janne’s @lappalainenjk.bsky.social blogpost on his recent work with Srini @srinituraga.bsky.social et al! Happily holidays!

With “Tübingen Women in Machine Learning”, Claire Vernade and her team have created a local community. Their aim is to empower women and make them more visible. Read more on our blog: www.machinelearningforscience.de/en/a-network... @twiml.bsky.social #TWiML #WiML

Thanks for the shout-out!

1) With our @neuripsconf.bsky.social poster happening tomorrow, it's about time to introduce our Spotlight paper 🔦, co-lead with @jkapoor.bsky.social: Latent Diffusion for Neural Spiking data (LDNS), a latent variable model (LVM) which addresses 3 goals simultaneously:

Thrilled to announce we have three #NeurIPS2024 papers! Interested in simulating realistic neural data with diffusion models or recurrent neural networks, or in source distribution sorcery? Have a look 👇 1/4

@vetterj.bsky.social and I are excited to present our work at #NeurIPS2024! We present Sourcerer: a maximum-entropy, sample-based solution to source distribution estimation. Paper: openreview.net/forum?id=0cg... Code: github.com/mackelab/sou... (1/8)

If you are interested in simulation-based inference, using or even contributing to the sbi toolbox, exchanging ideas, discussing papers: Join the SBI discord server!

Hi, we’re a cluster of excellence at the University of Tübingen in Germany, and our mission is to accelerate scientific discovery with machine learning. Here, we will post news and stories about our scientists and their research projects, and inform you about events and job offers from our groups.

Early vision Neuroscience community, Vol 1 We are talking eyes, retinas, and some of the more ancestral bits of visual brains. No species restrictions. List is close to full, will start building Vol 2 before too long Addition requests, please see link in the below thread go.bsky.app/BotZr1g

Watching the sbi-toolbox grow up, seeing its many uses on a wide range of applications, and experiencing the growth, momentum + team-spirit of the sbi community has been amazing. We now have a short software paper with many new contributions and contributors! So many thanks, and get involved!

🚨This paper led by @nihar-gupte.bsky.social has gone somewhat under the radar since posting, but it deserves attention: * It's the first paper to provide solid evidence for eccentricity in three LIGO-Virgo-KAGRA black hole binaries. * It was only possible thanks to AI-accelerated inference tools.

First 🦋preprint! Diffusion-MRI is perfect for amortised inference: Same model needs to be inverted on every voxel, so an inference network has dramatic efficiency gains over MCMC, at same or better accuracy! Fun collab @mackelab.bsky.social with @josepemanzano.bsky.social + @mristam.bsky.social!

Thrilled to contribute to this work led by David Frazier providing theory for NPE/NLE in simulation-based inference. These methods are known to match the accuracy of ABC and BSL with fewer simulations, this paper rigorously shows why this can be achieved. arxiv.org/abs/2411.12068

Yesterday was my first day at FAIR Chemistry as a research scientist. Looking for interns for summer 2025!

Let's start this blue journey 🦋 I recently started as a postdoc in AI for science in Tübingen at @mackelab.bsky.social. I will focus on model discovery, but I am more broadly interested in developing ML methods for science for some hopeful breakthroughs!