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Carsen Stringer @[email protected]

@computingnature

group leader @HHMIJanelia | diversity + open-science for better science | she/her | VOTE BLUE Mostly on MASTODON: @[email protected], join us!

Ashburn, VA Tham gia Haziran 2016

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Carsen Stringer @[email protected]@computingnature·22 Haz

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/10.110…

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Laura Grima@LauraGrimaNeuro·7 Kas

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/10.110…

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Carsen Stringer @[email protected]@computingnature·5 Kas

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

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Andreas Kist@anki_xyz·23 Eki

Amazing talk about imaging and discovering C. elegans embryogenesis by Hari Shroff from @HHMIJanelia presenting at #I2K2024

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Joel Lüthi@joel_luethi·24 Eki

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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Arianna Ravera@ariannaravera_·24 Eki

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

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HHMI | Janelia@HHMIJanelia·24 Eki

🖥️ 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-…

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Adrien Peyrache 🪐😴⚡️@apeyrache·23 Eki

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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Leonardo Dalla Porta@ldallap1·18 Eki

@eric_denovellis @computingnature 👆 good use case examples/tutorials help a lot!

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Ziqing Shi (Seesaw)@ZiqingShi·18 Eki

@computingnature Guidance for implement on HPC. Colab demo notebook. Suggestions on data size limitation.

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Adrien Peyrache 🪐😴⚡️@apeyrache·18 Eki

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

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

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Alexandre Bruni-Cardoso@AleBruniCardoso·18 Eki

@computingnature Video tutorials like your for using Cellpose

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Carsen Stringer @[email protected]@computingnature·18 Eki

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Advanced Bioimaging Center @ UC Berkeley@ABCUCBerkeley·18 Eki

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…

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Timothy O'Leary@Timothy0Leary·18 Eki

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

📢 #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

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Stoyo Karamihalev@stoyo_k·18 Eki

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

Make your next discovery using #Rastermap, a visualization method for large-scale neural data. Paper now out, w/ @marius10p : biorxiv.org/content/10.110…

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Carsen Stringer @[email protected]@computingnature·16 Eki

@martisamuser @taherehtoosi @StphTphsn1 @nasiryahm @hisspikeness @dyamins @aran_nayebi Yes! @Lin_Zhong_ion found changes in visual cortical responses during unsupervised learning, suggests potentially some form of contrastive learning (similar stimuli become more dissimilar with experience). More details here: biorxiv.org/content/10.110… x.com/Lin_Zhong_ion/…

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Carsen Stringer @[email protected]@computingnature·16 Eki

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Carsen Stringer @[email protected]@computingnature

Make your next discovery using #Rastermap, a visualization method for large-scale neural data. Paper now out, w/ @marius10p : biorxiv.org/content/10.110…

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Rita Strack@rita_strack·16 Eki

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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Ilenna Jones, PhD @ ilennaj.bsky.social@IlennaJ·8 Tem

@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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@jtdudman @HHMIJanelia @marius10p @thepynapple @martisamuser @taherehtoosi @StphTphsn1 @hisspikeness