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https://edspace.american.edu/openbehavior/project/pyper/

Project related to motion tracking of specimen in open field. Provides software tool for motion tracking.Used to track path of object of interest in live feed from camera or recorded video. Used to track rodents in open field maze as well as retina of mice.New version of Pyper allows to customise image processing to track different kind of objects.

Proper citation: Pyper project (RRID:SCR_021431) Copy   

•   Source: SciCrunch Registry

https://edspace.american.edu/openbehavior/project/facemap/

Project related to videographic processing of head fixed rodent behaviors. Provides software toolbox for unsupervised video analysis of rodent behavior.

Proper citation: FaceMap project (RRID:SCR_021428) Copy   

•   Source: SciCrunch Registry

https://edspace.american.edu/openbehavior/project/zebratrack/

Project related to distraction free behavioral acquisition. Provides imaging setup for distraction free behavioral acquisition with automated tracking using open source ImageJ software and workflow for extraction of behavioral endpoints of zebrafish. Used for online tracking of larval zebrafish at high framerates.Provides user interface to run experiments as well as flexible design to allow definition of arbitrary open- and closed- loop experiments.

Proper citation: ZebraTrack project (RRID:SCR_021429) Copy   

•   Source: SciCrunch Registry

https://edspace.american.edu/openbehavior/project/neurotic/

Project about synchronizing video and neural signals. Provides software Python toolbox for interactive characterization in neuroscience.Software tool used to review and annotate signal data synchronized with video, performs simple initial analyses including signal filtering and spike detection, supports variety of file formats.

Proper citation: neurotic project (RRID:SCR_021403) Copy   

•   Source: SciCrunch Registry

https://edspace.american.edu/openbehavior/project/deepfly3d/

Project related to deep learning based pose estimator for studying how neural circuits control limbed behaviors in tethered Drosophila. Includes Deep Fly image annotation tool for pose estimation and to permit further correction of 2D pose estimates, which are automatically converted to 3D pose.

Proper citation: DeepFly3D project (RRID:SCR_021400) Copy   

•   Source: SciCrunch Registry

https://github.com/fdechaumont/lmt-analysis

Software package for Live Mouse Tracker analysis. lmt-analysis provides all analysis tools needed to extract information from tracking performed by live mouse tracker.

Proper citation: Live Mouse Tracker analysis (RRID:SCR_021505) Copy   

•   Source: SciCrunch Registry

https://edspace.american.edu/openbehavior/project/camera-control/

Portal provides Python based camera software GUI developed by Harvard University scientists. Open source software package that allows video to be recorded in sync with behavior. Python API to record video system timestamps from Imaging Source USB cameras.

Proper citation: Camera Control project (RRID:SCR_021569) Copy   

•   Source: SciCrunch Registry

https://edspace.american.edu/openbehavior/project/freemovr/

Portal related to virtual reality for freely moving animals.Provides virtual reality system set up for unrestrained animals.System developed by University of Frieburg scientists. This Virtual Reality system can be used with number of different species including mice, zebrafish, and Drosophila.

Proper citation: FreemoVR project (RRID:SCR_021551) Copy   

•   Source: SciCrunch Registry

https://github.com/BrettHewitt/ART

Software tool to automatically track rodent position and movement.Used to track head movements, body movements and also aspects of body size. It is able to identify certain behaviours from video footage too, such as rotations, moving forwards, interacting with objects and staying still.

Proper citation: Automated Rodent Tracker (RRID:SCR_021510) Copy   

•   Source: SciCrunch Registry

https://edspace.american.edu/openbehavior/project/rodentjoystick/

Project features single board real time input/output system including touch sensing joysticks to quantify mouse forelimb trajectories with micron millisecond spatiotemporal resolution, which resolves mouse forelimb kinematics and further allows extraction of primitives. Joystick increases spatial precision, and reduces displacement force. Joystick is then integrated into automated home cage system to train mice in center out reach task.

Proper citation: RodentJoystick (RRID:SCR_023482) Copy   

•   Source: SciCrunch Registry

https://www.dropbox.com/s/wx7aicjh4is81om/HomeCageForelimbTask.py?dl=0

Software Python tool running on Raspberry Pi computer. Used for trial timing and data logging. Part of Autonomous Training of Forelimb Motor Task system.

Proper citation: Autonomous Training of a Forelimb Motor Task (RRID:SCR_021603) Copy   

•   Source: SciCrunch Registry

https://github.com/mauriciowr/OBAT

Software tool as part of Operant Box for Auditory Tasks system.

Proper citation: Operant Box for Auditory Tasks (RRID:SCR_021604) Copy   

•   Source: SciCrunch Registry

https://github.com/PTMonteiro/GoFish_Ajuwon_etal_2022

Bonsai code for running GOFish platform for behavioural experiments in fish.

Proper citation: GoFish Ajuwon etal 2022 (RRID:SCR_022511) Copy   

•   Source: SciCrunch Registry

https://github.com/DepartmentofNeurophysiology/Matlab-Whisker-Tracker

Shared database of videos featuring juvenile and adult male rats and adult male mice exploring stationary objects.This dataset includes wide variety of experimental conditions including genetic, pharmacological, and sensory deprivation interventions to explore how active sensing behavior is modulated by different factors. Database of high speed videos of whisking behavior in freely moving rodents.Open source high speed infrared videography database to study principles of active sensing in freely navigating rodents.

Proper citation: Open Source Whisking Video Database (RRID:SCR_021407) Copy   

•   Source: SciCrunch Registry

https://github.com/Imbrosci/synaptic-vesicles-detection

Software tool as Python based synaptic vesicle classifier algorithm to identify neurotransmitter vesicles in electron microscopy images using Pytorch.

Proper citation: Synaptic Vesicles Detection (RRID:SCR_024910) Copy   

•   Source: SciCrunch Registry

https://github.com/munoztd0/Mouthpiecegusto

3D printed pacifier shaped mouthpiece for fMRI compatible gustometers to deliver up to eight liquids during fMRI task. Can be utilized to study flavor, taste reactivity, reward or punishment with food, conditioning, and neurodegenerative conditions such as Alzheimers and Parkinsons, since taste and smell senses diminish early into disease acquisition.

Proper citation: 3DP Gustometer (RRID:SCR_025010) Copy   

•   Source: SciCrunch Registry

https://github.com/mmgxw3/pipetteFindingCNN

Software application for convolutional neural network that assesses pipette positioning before patch clamp is begun to minimize patch clamping errors in electrophysiology experiments. Used for detecting pipette positioning and making patch clamping procedures.

Proper citation: Pipette Finding CNN (RRID:SCR_024992) Copy   

•   Source: SciCrunch Registry

https://github.com/BerezhnoyD/Reaching_Task_VAI/

Open source hardware-software platform for analyzing reaching movement kinematics in mice. Used for studying fine motor skills in mice performing reach-to-grasp task. Behavioral platform uses readily available and 3D-printed components and was designed to be affordable and universally reproducible. Provides schematics, 3D models, code, and assembly instructions.

Proper citation: ReachOut (RRID:SCR_025502) Copy   

•   Source: SciCrunch Registry

https://edspace.american.edu/openbehavior/project/ort/

Open-source apparatus to enable continuous individual monitoring, training, and testing of rats without removing them from their social environment. This system utilizes RFID technology to track individual animals, minimizing human intervention and providing precise behavioral data.

Proper citation: One-rat Turnstile (RRID:SCR_025570) Copy   

•   Source: SciCrunch Registry

https://github.com/3Dneuro/TD_Drive

Parametric, open-source implant for multi-area electrophysiological recordings in behaving and sleeping rats. 3D-printable implant for rats, capable of symmetric, bilateral wire electrode recordings, currently in up to six distributed brain areas simultaneously.

Proper citation: TD_Drive (RRID:SCR_025672) Copy   

•   Source: SciCrunch Registry