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OpenBehavior @openbehavior.bsky.social · 5d

If you have a project that you would like us to post about, please reach out to us at [email protected].

OpenBehavior @openbehavior.bsky.social · 5d

We will be posting less frequently going forward. Funding for our project from the NSF has completed. We will proceed as we first did with this project, with a more grass roots approach involving undergraduates at American University in creating content for our website.

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OpenBehavior @openbehavior.bsky.social · 5d

This month's post was written by Ellie Blumer, a second-year neuroscience major and computer science minor at American University.

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OpenBehavior @openbehavior.bsky.social · 5d

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

DeepOF

Visit the post for more.

edspace.american.edu

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OpenBehavior @openbehavior.bsky.social · Jul 25

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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Reposted by OpenBehavior

The Transmitter @thetransmitter.bsky.social · Jul 25

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...

What kinds of support do early-career researchers need?

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

www.thetransmitter.org

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Reposted by OpenBehavior

The Transmitter @thetransmitter.bsky.social · Jul 18

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 · Jul 18

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 · Jul 11

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...

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

github.com

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OpenBehavior @openbehavior.bsky.social · Jul 11

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 · Jun 27

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 · Jun 20

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

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

github.com

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OpenBehavior @openbehavior.bsky.social · Jun 20

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 · Jun 13

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 · Jun 6

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 · May 23

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 · May 16

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 · May 9

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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Reposted by OpenBehavior

Noah W. Miller @noahmiller.bsky.social · May 9

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...

www.eneuro.org

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Reposted by OpenBehavior

Imaging Neuroscience @imagingneurosci.bsky.social · May 7

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 · May 2

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 · Apr 25

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 · Apr 18

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 · Apr 11

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...

OpenBehavior @openbehavior.bsky.social · Apr 11

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

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