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

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

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

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...

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...

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 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

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...

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...

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...

📢 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

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...

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...

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

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

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...

🧐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 👇

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

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...

🎥 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

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...

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....

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...

🎇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

Indeed! A few years ago @arrudacarvalho.bsky.social led a group of us to publish a piece specifically on the use of 3D printing for object recognition tests: www.eneuro.org/content/8/5/...

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

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...

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...

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...

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...