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Do we really need neural networks to predict the activity of ~real~ neurons? Yes, but we can make them a lot simpler, at least in V1 of 🐭+🐒 #minimodels #neuroAI

Kording Lab 🦖 and I efficiently optimize high-dimensional biophysical neuron models with heterogeneous active dendrites using the gradient-based backpropagation of error algorithm typically used to train models in deep learning. Preprint on arxiv: arxiv.org/abs/2407.04025 1/18

Two is better than one-- at least when it comes to memory! The pairing of two proteins underlie month-long memories in mice, a new study suggests. Read my latest for The Transmitter thetransmitter.org/memory/persist…

It's the middle of breast cancer awareness month! I must admit I dislike getting mammograms. It's not the procedure, it's just the fear of the unknown. But, breast cancer can be very treatable if caught early, so please get checked!

📢 #Rastermap paper out now, easily explore and visualize your neural recordings 🐭🐒🐟 and ANNs 🤖 nature.com/articles/s4159…. Updates from preprint include analyses of primate data and IBL task data. Video tutorial: youtu.be/oQHq7yUWn2k #Neuroscience #MachineLearning

Wonderful tool for exploring neural data! Stationary and dynamic patterns, all in one place and along a single dimension. Not a petri dish mold-shaped point-cloud in sight. It’s become one of my favorite ways of trying to guess at what neurons are up to.

We are excited to introduce PetaKit5D, a comprehensive suite of software tools designed to tackle challenges in the handling of large datasets and make processing of petabyte-scale datasets feasible: nature.com/articles/s4159…

This is a *beautiful* paper and method, and while the paper itself is very careful about drawing conclusions from the variety of datasets it analyzes, I'd say the edifice of "the brain is chaotic" hypothesis is crumbling!

Six tips for going public with your lab’s software: nature.com/articles/d4158… 1) make time for maintenance 2) simplify installation 3) add a GUI or good CLI 4) good documentation 5) use github/git 6) automated testing Any other tips people have? #OpenScience #OpenSource

Carsen Stringer @[email protected] Video tutorials like your for using Cellpose

Great tips! We’ve been through this with Pynapple, to do it properly is much harder than you can imagine.

Carsen Stringer @[email protected] Guidance for implement on HPC. Colab demo notebook. Suggestions on data size limitation.

@eric_denovellis Carsen Stringer @[email protected] 👆 good use case examples/tutorials help a lot!

Amazing talk about imaging and discovering C. elegans embryogenesis by Hari Shroff from HHMI | Janelia presenting at #I2K2024

We performed ephys recordings, in head-fixed and freely moving animals, and found the head-direction system boosts its gain when a landmark is seen—suggesting a mechanism that signals stronger confidence in vision when natural objects are present. 4/

It's great to be at #I2K2024 #i2k and see (almost) everyone in bioimage analysis. If you're interested in OME-Zarrs or what we're doing with Fractal, stop by my poster today! :)

🖥️ Rastermap, a new visualization tool developed by the Stringer (Carsen Stringer @[email protected]) & Pachitariu (Marius Pachitariu) labs, helps scientists uncover activity patterns in large-scale neural recordings. 🧠 🔗janelia.org/news/new-tool-…

#I2K is in full swing! Had a great time presenting my poster yesterday. Excited for what’s next! ✨ #I2K2024

Did you vote today!?!?!? Polls were busy in #virginia this morning! FYI #virginia has same day voter registration! elections.virginia.gov/registration/s…

The first preprint of my postdoc with Dud{man,Lab}🇺🇦 is now online! Here we wanted to understand the algorithms mice use when learning to forage in large environments with many potential resources. 1/n biorxiv.org/content/10.110…