OpenBehavior

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

What kinds of support do early-career researchers need? Help The Transmitter and Neuromatch bolster the next generation of neuroscientists.

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...

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

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

GitHub - LaubachLab/ArUco-tracker: A Python program using OpenCV for offline analysis of ArUco markers recorded Bonsai A Python program using OpenCV for offline analysis of ArUco markers recorded Bonsai - LaubachLab/ArUco-tracker

Ray Shen, a student at the University of Maryland, developed the program as part of summer research with the OB team. You can access his code here:

github.com/LaubachLab/A...

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

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...

GitHub - LaubachLab/arduino_counter: A simple device for displaying trial number in video recordings of operant experiments A simple device for displaying trial number in video recordings of operant experiments - LaubachLab/arduino_counter

Design files for the Arduino counter are available on the Laubach Lab's GitHub at github.com/LaubachLab/a...

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

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...

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...

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...

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...

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...

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...

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...

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...

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...

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

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...

Sorry. We are not aware of any options. Hopefully, someone will see your post and offer some guidance.

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

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...

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

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...

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

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...

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?

ArUco Markers Visit the post for more.

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

Meso-Py Visit the post for more.

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

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