@computingnature

group leader @HHMIJanelia | diversity + open-science for better science | she/her | VOTE BLUE Mostly on MASTODON: @Computingnature@neuromatch.social, join us!

 Ashburn, VA
mouseland.github.io/
Joined June 2016
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106Media
Story time! Single neurons in the brain can’t be depended on for reliable information. Here are some neurons from our recent study, recorded twice in response to the same visual stimuli. Different neurons are active at different times! biorxiv.org/content/10.1101/…
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The first preprint of my postdoc with @jtdudman 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/10.1101/…
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Did you vote today!?!?!? Polls were busy in #virginia this morning! FYI #virginia has same day voter registration! elections.virginia.gov/regis…
Harris walz kaine and suhas for Virginia!

ALT Harris walz kaine and suhas for Virginia!

Kamala will cut taxes for 100 million Americans

ALT Kamala will cut taxes for 100 million Americans

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Amazing talk about imaging and discovering C. elegans embryogenesis by Hari Shroff from @HHMIJanelia presenting at #I2K2024
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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! :)
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#I2K is in full swing! Had a great time presenting my poster yesterday. Excited for what’s next! ✨ #I2K2024
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🖥️ Rastermap, a new visualization tool developed by the Stringer (@computingnature) & Pachitariu (@marius10p) labs, helps scientists uncover activity patterns in large-scale neural recordings. 🧠 🔗janelia.org/news/new-tool-he…
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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/
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Replying to @computingnature
👆 good use case examples/tutorials help a lot!
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Replying to @computingnature
Guidance for implement on HPC. Colab demo notebook. Suggestions on data size limitation.
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Great tips! We’ve been through this with @thepynapple, to do it properly is much harder than you can imagine.
Carsen Stringer @[email protected]@computingnature
18 Oct 2024
Six tips for going public with your lab’s software: nature.com/articles/d41586-0… 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
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Replying to @computingnature
Video tutorials like your for using Cellpose
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Six tips for going public with your lab’s software: nature.com/articles/d41586-0… 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
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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/s41592-0…
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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!
Carsen Stringer @[email protected]@computingnature
16 Oct 2024
📢 #Rastermap paper out now, easily explore and visualize your neural recordings 🐭🐒🐟 and ANNs 🤖 nature.com/articles/s41593-0…. Updates from preprint include analyses of primate data and IBL task data. Video tutorial: youtu.be/oQHq7yUWn2k #Neuroscience #MachineLearning
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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.
Carsen Stringer @[email protected]@computingnature
29 Jul 2023
Make your next discovery using #Rastermap, a visualization method for large-scale neural data. Paper now out, w/ @marius10p : biorxiv.org/content/10.1101/…
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📢 #Rastermap paper out now, easily explore and visualize your neural recordings 🐭🐒🐟 and ANNs 🤖 nature.com/articles/s41593-0…. Updates from preprint include analyses of primate data and IBL task data. Video tutorial: youtu.be/oQHq7yUWn2k #Neuroscience #MachineLearning
Carsen Stringer @[email protected]@computingnature
29 Jul 2023
Make your next discovery using #Rastermap, a visualization method for large-scale neural data. Paper now out, w/ @marius10p : biorxiv.org/content/10.1101/…
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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!
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Replying to @KordingLab
@KordingLab 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
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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
Fengtong(Farah) Du@Du_Fengtong
3 Jul 2024
🚨Preprint‼️ 1/ Predicting neural activity is notoriously difficult and requires complicated models. Here we develop simple “minimodels” which explain 70% of neural variance in V1! 🐭🐒 #neuroai @computingnature @marius10p @NunezKant Paper: biorxiv.org/content/10.1101/… Recording 🔬 :
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