Pathfinder

AUGUST 8, 2019 Matthew Cooke and colleagues from Jason Snyder’s lab at University of British Columbia recently developed open source software to detect spatial navigation behavior in animals called Pathfinder: Spatial navigation is studied across several different paradigms for different purposes in animals; through analyzing spatial behaviors we can gain insight into how an animal […]

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MouseMove

July 18, 2019 In a 2015 Scientific Reports article, Andre Samson and colleagues shared their project MouseMove, an open-source software for quantifying movement in the open field test: The Open Field (OF) test is a commonly used assay for monitoring exploratory behavior and locomotion in rodents. Most research groups use commercial systems for recording and […]

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ezTrack

June 13, 2019 Zach Pennington from Denise Cai’s lab at Mt. Sinai recently published in Scientific Reports describing their latest open-source project called ezTrack: ezTrack is an open-source, platform independent set of behavior analysis pipelines using interactive Python (iPython/Jupyter Notebook) that researchers with no prior programming experience can use. ezTrack is a sigh of relief […]

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Automated classification of self-grooming in mice

May 16, 2019 In the Journal of Neuroscience Methods, Bastijn van den Boom and colleagues have shared their ‘how-to’ instructions for implementing behavioral classification with JAABA, featuring bonsai and motr! In honor of our 100th post on OpenBehavior, we wanted to feature a project that exemplifies how multiple open-source projects can be implemented to address […]

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Stytra

May 03, 2019 Vilim Štih has shared their new project from the Portugues lab called Stytra, which was recently published in PLOS Computational Biology (Štih, Petrucco et al., 2019): “Stytra is a flexible open-source software package written in Python and designed to cover all the general requirements involved in larval zebrafish behavioral experiments. It provides […]

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idtracker.ai

February 20, 2019 Francisco Romero Ferrero and colleagues have developed idtracker.ai, an algorithm and software for tracking individuals in large collectives of unmarked animals, recently described in Nature Methods. Tracking individual animals in large collective groups can give interesting insights to behavior, but has proven to be a challenge for analysis. With advances in artificial […]

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Open-source platform for worm behavior

February 13, 2019 In Nature Methods, Avelino Javer and colleagues developed and shared an open-source platform for analyzing and sharing worm behavioral data. Collecting behavioral data is important and analyzing this data is just as crucial. Sharing this data is also important because it can further our understanding of behavior and increase replicability of worm […]

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