iiinova — where your digital self keeps evolving

OpenBehavior @openbehavior.bsky.social · 03/10/2025

DeepOF (Deep Open Field) processes DeepLabCut/SLEAP data using supervised and unsupervised annotation pipelines and using SHAP for interpretability. Read about it in this month's post on OpenBehavior: edspace.american.edu/openbehavior... #OpenSource #Neuroscience #DeepLearning

edspace.american.edu

DeepOF

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OpenBehavior @openbehavior.bsky.social · 25/07/2025

Getting advanced video analysis tools like SLEAP, DeepEthogram, and A-SOID to work can be tricky! Our team figured out some key steps and fixes. Check out our detailed setup guide: edspace.american.edu/openbehavior... #OpenScience #Neuroscience #LabHacks

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The Transmitter @thetransmitter.bsky.social · 25/07/2025

Calling all early-career researchers! @thetransmitter.bsky.social and @neuromatch.bsky.social want to understand your journey as you become the next generation of neuroscientists. Share your experiences and help us build the resources you need. #neuroskyence www.thetransmitter.org/early-career...

thetransmitter.org

What kinds of support do early-career researchers need?

Help The Transmitter and Neuromatch bolster the next generation of neuroscientists.

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The Transmitter @thetransmitter.bsky.social · 18/07/2025

An exciting collaboration is underway. @thetransmitter.bsky.social is partnering with @neuromatch.bsky.social to serve the computational neuroscience community and help connect neuroscientists across all career stages. www.thetransmitter.org/neuromatch-p... #neuroskyence

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OpenBehavior @openbehavior.bsky.social · 18/07/2025

What's hot in open-source neuroscience for 2025? This week's post on OpenBehavior reviews projects of interest to the followers of our blog in the first half of 2025. Check it out: edspace.american.edu/openbehavior... #opensource #neuroscience

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OpenBehavior @openbehavior.bsky.social · 11/07/2025

Real-time ArUco tracking is available in Bonsai but has some limitations. The OB team developed a Python/OpenCV program for robust offline analysis, that provides full position and rotation information. Read about it in this week's post: edspace.american.edu/openbehavior... #Neuroscience

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OpenBehavior @openbehavior.bsky.social · 27/06/2025

Thomas Akam (U Oxford) developed an active commutator that auto-rotates to prevent twisting of cables for neural recordings from freely moving subjects. Read about it in this week's post on OpenBehavior. #Electrophysiology #OpenScience #Neuroscience edspace.american.edu/openbehavior...

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OpenBehavior @openbehavior.bsky.social · 20/06/2025

Our latest post highlights a simple, open-source #Arduino device developed by Jason Blackmer from the Laubach Lab that displays trial numbers in your video recordings. It makes finding trials a breeze! edspace.american.edu/openbehavior... #OpenScience #Neuroscience #LabHacks

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OpenBehavior @openbehavior.bsky.social · 13/06/2025

This week's post on OpenBehavior reviews available #opensource tools for imaging, including for microscopy, calcium imaging, and integrating behavior with imaging. From UCLA Miniscope to PyPhotometry, see what's making an impact! 👇#Neuroscience edspace.american.edu/openbehavior...

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OpenBehavior @openbehavior.bsky.social · 06/06/2025

This week's post on OpenBehavior reviews our posts over the years on #opensource tools for neural recordings & analysis, including a motorized swivel, Pynapple, & Open Ephys. #Neuroscience #Electrophysiology #OpenScience edspace.american.edu/openbehavior...

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OpenBehavior @openbehavior.bsky.social · 23/05/2025

Researchers have developed a chronic EMG implant for the diaphragm in freely behaving rats. It is low-cost, quick to build, and fully documented. Read about it in this week's post on OpenBehavior. @streeter_kristi @LabDale #opensource #neuroscience edspace.american.edu/openbehavior...

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OpenBehavior @openbehavior.bsky.social · 16/05/2025

This summer, we're working on documenting setups and protocols for using popular tools such as SLEAP, Bonsai, & ArUco marker tracking. You can read about our plans in this week's post and stay tuned for updates over the summer! #OpenScience #Neuroscience edspace.american.edu/openbehavior...

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OpenBehavior @openbehavior.bsky.social · 09/05/2025

Bell Jar is a desktop application for semi-automated histology analysis that includes routines for serial alignment, marker detection, and integration with the Allen reference atlas. Read about it in this week's post on OpenBehavior. #opensource #neuroscience edspace.american.edu/openbehavior...

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Noah W. Miller @noahmiller.bsky.social · 09/05/2025

Plug for my lab’s open source commutator designed for compatibility with electrical I/O, an accessible through-hole for non-electrical tethers, and low-noise active rotation. I have gotten great performance out of it and recommend it to anyone needing a commutator! www.eneuro.org/content/eneu...

eneuro.org

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Imaging Neuroscience @imagingneurosci.bsky.social · 07/05/2025

New paper in Imaging Neuroscience by Britta U. Westner, Tim M. Tierney, et al: Cycling on the Freeway: The perilous state of open-source neuroscience software doi.org/10.1162/imag...

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OpenBehavior @openbehavior.bsky.social · 02/05/2025

Wrapping up our behavior measurement series! This week: open-source tools for head-fixed setups. From running wheels to imaging platforms, explore the possibilities and expand your research capabilities! #OpenSource #Neuroscience edspace.american.edu/openbehavior...

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OpenBehavior @openbehavior.bsky.social · 25/04/2025

STPoseNet combines YOLOv8 with innovative timing & Kalman filtering for real-time, accurate mouse pose estimation with minimal labeling. Check it out: edspace.american.edu/openbehavior...

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OpenBehavior @openbehavior.bsky.social · 18/04/2025

This week on OpenBehavior! 📢 A review of impactful open-source devices for measuring behavior in the homecage. Learn about FED, PiDose, LIQ HD, & more! edspace.american.edu/openbehavior... #OpenScience #Neuroscience

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OpenBehavior @openbehavior.bsky.social · 11/04/2025

KineWheelArena-DLC is an integrated system based on KineWheel and DeepLabCut. It uses fluorescent dyes to automatically track paw placement during locomotion. Read about it in this week's post on OpenBehavior: edspace.american.edu/openbehavior...

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Bill Nihilist @wmkenkel.bsky.social · 07/04/2025

Hey @openbehavior.bsky.social do you know of any open source approaches to measuring blood pressure in rodents? I can't seem to find any

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OpenBehavior @openbehavior.bsky.social · 04/04/2025

Want to measure behavior in freely moving animals? We've rounded up some of the most interesting and impactful open-source devices available. Check out this week's post on OpenBehavior for details and links! #OpenSource #Neuroscience edspace.american.edu/openbehavior...

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Ali Mohebi @mohebial.bsky.social · 03/04/2025

Homebrew pumps and boards are ready for the next 16 training boxes! Long live open science

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OpenBehavior @openbehavior.bsky.social · 28/03/2025

MyVivarium is an #opensource tool for animal colony management. It uses QR codes, IoT sensors, & allows for cloud-based tracking. Read about it in this week's post on OpenBehavior: edspace.american.edu/openbehavior...

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OpenBehavior @openbehavior.bsky.social · 24/03/2025

Looking forward to this webinar tomorrow on FlexRig and open-source tools in general.

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OpenBehavior @openbehavior.bsky.social · 21/03/2025

Open-source tools are changing the way we measure behavior in neuroscience. We explore some of the most impactful projects, from fluid consumption to vaporized drug delivery, in this week's post on OpenBehavior. #OpenHardware #DIYResearch edspace.american.edu/openbehavior...

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Ali Mohebi @mohebial.bsky.social · 18/03/2025

Folks. What kind of lickometer would you recommend for head-fixed npx recording. We are using capacitive and aren't happy with the noise level. Optical was also not fun with dual port and returns a lot of false negatives... Anything out there you like?

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OpenBehavior @openbehavior.bsky.social · 14/03/2025

ArUco markers help automate animal behavior scoring. They are open-source and 3D printable. Read about them in this week's post on OpenBehavior: edspace.american.edu/openbehavior... #neuroscience #openscience #behavior

edspace.american.edu

ArUco Markers

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OpenBehavior @openbehavior.bsky.social · 07/03/2025

Interested in the neural mechanisms of social behavior? Check out Meso-Py! This Raspberry Pi based platform allows for simultaneous calcium imaging in two mice during social interactions. #neuroscience #opensource #socialbehavior edspace.american.edu/openbehavior...

edspace.american.edu

Meso-Py

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OpenBehavior @openbehavior.bsky.social · 28/02/2025

Check out FlexRig, an open-source platform for decision-making & cognitive flexibility studies. 🐁🧠 Olfactory, auditory, somatosensory cues, & more! Low-cost, fully customizable. #OpenSource #Neuroscience #ResearchTools @tspell.bsky.social edspace.american.edu/openbehavior...

edspace.american.edu

FlexRig

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OpenBehavior @openbehavior.bsky.social · 21/02/2025

NC4gate is an #opensource tool for the automatic control of gates in rodent maze experiments. Total cost is $50 and the system controls 500 gates. It was developed by Adam Lester and colleagues. Read about it in this week's post on OB: edspace.american.edu/openbehavior...

edspace.american.edu

NC4gate

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Open Ephys @open-ephys.org · 21/02/2025

📢 Update notice 🔄 Make sure to update to version 0.4.4 of our ONIX Bonsai package (OpenEphys.Onix1) for performance improvements. Here is the change log: github.com/open-ephys/b... And the docs on how to update: open-ephys.github.io/bonsai-onix1... #OpenEphys #ONIX #Bonsai

github.com

Release v0.4.4 · open-ephys/bonsai-onix1

What's Changed 🚀 Performance Improvements Tie lifetime of oni.Context to that of ContextTask by @jonnew in #409 📄 Documentation Add voltage conversion equations to Neuropixels DataFrame docs by ...

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OpenBehavior @openbehavior.bsky.social · 14/02/2025

Collaborative efforts are the driving force behind innovation in neuroscience. In an era of funding constraints, open-source tools are more critical than ever. We review community-developed tools for data analysis this week on OB. #openscience 🧵 edspace.american.edu/openbehavior...

edspace.american.edu

Open-Source Tools for Data Analysis

This year, we’re focusing on the impact of open-source tools on research productivity, which seems especially relevant given current funding challenges for science. Our findings aim to demons…

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OpenBehavior @openbehavior.bsky.social · 07/02/2025

Researchers from the Champalimaud Foundation have shared an open-source lickometer that uses optical fibers for precise lick detection and includes an integrated nosepoke detector and LEDs for visual cue. Read about it in this week's post on OpenBehavior: edspace.american.edu/openbehavior...

edspace.american.edu

High-Precision Optical Fiber-Based Lickometer

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Open Ephys @open-ephys.org · 07/02/2025

Join us in the following programs that demystify cutting-edge neuroscience techniques and empower you with low-cost, open-source tools you can use 🧠⚡️ More info in the thread below 👇 #OpenEphys #OEdu #ExperimentalNeuroscience #BehavioralNeuroscience

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Whelan Lab TCD @whelanlabtcd.bsky.social · 13/01/2025

This book now available *open access* through Springer Neuromethods: link.springer.com/book/10.1007.... @brainalien.bsky.social and I extend heartfelt thanks to all contributing authors for their exceptional work, w/ special gratitude to Paul Thompson @ptenigma.bsky.social for an inspiring foreword

link.springer.com

Methods for Analyzing Large Neuroimaging Datasets

This Open Access volume explores advancements in methodologies, efficient code management, and scalable data processing of neuroimaging datasets.

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The Transmitter @thetransmitter.bsky.social · 04/02/2025

The newly launched Compliance Unit Standard Procedures site provides a secure platform for researchers to share IACUC-approved animal procedures, in the hopes of reducing administrative burden. By @callimcflurry.bsky.social #neuroskyence www.thetransmitter.org/community/pr...

thetransmitter.org

Protocol-sharing site aims to ease administrative burden of animal research

The library of regulatory-compliant animal procedures offers experimental standards and specific language that researchers can borrow for their own legal paperwork.

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Open Neuroscience @open-neuroscience.com · 31/01/2025

🧐Want to dive deeper into Open Hardware (OH)? 💡Are you trying to start or improve your own OH? 🥳Whatever the case, Open Science Office Hours is here to help! 🗓️Book now a one-on-one meeting with André, founder of the Open Neuroscience initiative, and expert of the month 🔗Link and more details 👇

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OpenFlexure @openflexure.bsky.social · 01/02/2025

We are having a blast at #FOSDEM, showcasing the OpenFlexure Microscopes and chatting with loads of other open-source enthusiasts!! Come and see us in Hall H to get a demo of our microscope, and come along to our talk tomorrow at 15:20 CET in H.1309 (Van Rijn)! #OpenSource

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OpenBehavior @openbehavior.bsky.social · 31/01/2025

A new Python toolbox called HSSM simplifies working with Hierarchical Sequential Sampling Models (HSSMs) to understand how we accumulate evidence and make choices. Built on PyMC, Bambi, & ArviZ. Check it out! #cognitivescience #python #decisionmaking edspace.american.edu/openbehavior...

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TheBehaviourForum.org @thebehaviourforum.bsky.social · 29/01/2025

🎥 Big Announcement! On Feb 5th at 13:00 CET, we kick off the 1st edition of our UNDERSTANDING BEHAVIOUR live workshop experience ! 🧠 Emma Robinson will dive into modelling depression-like behaviours in rodents, from assay limitations to innovative approaches. #Neuroscience #BehavioralResearch

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OpenBehavior @openbehavior.bsky.social · 23/01/2025

Looking forward to the @winter_brain meeting this weekend! We are presenting a poster on OpenBehavior on Saturday and Jensen Palmer is speaking in a workshop on Monday on RL and DDMs. Files and data for her talk are available here: github.com/LaubachLab/W...

github.com

GitHub - LaubachLab/WCBR25

Contribute to LaubachLab/WCBR25 development by creating an account on GitHub.

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Open Ephys @open-ephys.org · 23/01/2025

Attention #Miniscope and #neuropixels users! We recently published updates to our OpenEphys.Miniscope and OpenEphys.Onix1 Bonsai (bonsai-rx.org) libraries - make sure you update! Release notes are here: github.com/open-ephys/b... and github.com/open-ephys/b....

github.com

Release v0.3.4 · open-ephys/bonsai-miniscope

What's Changed Fix incorrect cast when interpreting quaternion data from UVC registers by @jonnew in #34 Full Changelog: v0.3.3...v0.3.4

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OpenBehavior @openbehavior.bsky.social · 17/01/2025

The DREAM implant is a novel design for chronic electrophysiology in mice that is lightweight, adaptable, and cost-effective. @ZeroNoiseLab @3DNeuro @DondersInstitute Read about it in this week's post on OpenBehavior: edspace.american.edu/openbehavior...

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Open Neuroscience @open-neuroscience.com · 10/01/2025

🎇Happy New Year folks! 👀Check out PhyloPic, an open database of freely reusable silhouettes of life forms. It is totally worth checking these beautiful and realistic images ranging from 🍄and 🍁, to 🐒 and🦋. By @tmkeesey.bsky.social 🔗Link: open-neuroscience.com/en/post/phyl... #OpenScience #Science

open-neuroscience.com

PhyloPic | Open Neuroscience

Free silhouette images of animals, plants, and other life forms, available for reuse under Creative Commons licenses. Project Author(s) T. Michael Keesey Project Links https://www.phylopic.org/ This p...

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OpenBehavior @openbehavior.bsky.social · 10/01/2025

3D printing has had a major impact on neuroscience research in recent years. Our curated collection of designs is one of the most accessed posts on our website. Read about it in this week’s post on OpenBehavior: edspace.american.edu/openbehavior... #neurotech #DIYneuroscience #3Dprinting

edspace.american.edu

3D Printing Redux

One of the most impactful areas of open-source neuroscience has been the sharing of 3D printed designs. We’ve seen firsthand how valuable this is – our own collection of 3D printed objects ha…

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OpenBehavior @openbehavior.bsky.social · 27/12/2024

It's a wrap! 🎬 Our 2024 Year in Review highlights the top #opensource #neuroscience tools, including our video repository, brain atlas tools (FASTMAP, WholeBrain), and video analysis methods (MoSeq/Keypoint MoSeq). edspace.american.edu/openbehavior...

edspace.american.edu

2024 Year in Review

The past year was a good one for open-source tools. Based on the use of our website, sixty projects were accessed more than 100 times over the year. Four projects stood out with the most page hits.…

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OpenBehavior @openbehavior.bsky.social · 03/01/2025

If you're working with LFP data in Python, ghostipy is worth checking out. It provides a really nice implementation of the continuous wavelet transform and other unique analyses. #opensource #neuroscience Read about it in this week's post on OpenBehavior: edspace.american.edu/openbehavior...

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OpenBehavior @openbehavior.bsky.social · 27/12/2024

edspace.american.edu

2024 Year in Review

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OpenBehavior @openbehavior.bsky.social · 20/12/2024

The Wilber Lab has shared a platform for studying spatial cognition in animal models. It is another outstanding example of sharing setups and protocols for neuroscience research. Read about it in this week's post on OpenBehavior. edspace.american.edu/openbehavior...

edspace.american.edu

Spatial Cognition Platform

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