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

Software Python toolbox that makes fiber photometry data analysis intuitive and light on programming.Used to measure neural activity of freely behaving animals.

Proper citation: GuPPy (RRID:SCR_022353) Copy   

•   Source: SciCrunch Registry

https://github.com/crtwomey/paws

Statistical software platform for automated scoring of pain in mice.Software R package takes paw trajectory data in response to stimulus and provides automated scoring of pain.

Proper citation: Pain Assessment at Withdrawal Speeds (RRID:SCR_022350) Copy   

•   Source: SciCrunch Registry

https://github.com/sgoldenlab/simba

Open source software toolkit for computer classification of complex social behaviors in experimental animals.

Proper citation: Simple Behavior Analysis (RRID:SCR_021413) Copy   

•   Source: SciCrunch Registry

https://edspace.american.edu/openbehavior/project/neuroethology-tools/

Software Python pipeline for automated detection, pose estimation, and behavior classification in socially interacting mice.Used for pose estimation and behavior quantification in pairs of freely behaving mice.

Proper citation: Mouse Action Recognition System (RRID:SCR_022347) Copy   

•   Source: SciCrunch Registry

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

Software pipeline for video analysis. Deep learning Swiss knife for behavioral data analysis.Performs segmentation, identification, pose-estimation and classification of complex behaviour. Used for analysis of behavior of multiple animals in complex environments.

Proper citation: SIPEC (RRID:SCR_022364) Copy   

•   Source: SciCrunch Registry

https://edspace.american.edu/openbehavior/project/timed-pressure-control/

System uses Arduino microcontroller to control relay module that operates solenoid valve which all sit in 3D printed housing. Solenoid works in conjunction with flowmeter regulator to allow for controlled flow of pressurized air into target. Timing of distensions is controlled via either custom Python based UI, or by triggered TTL pulse.Timed pressure control hardware and software used for delivery of air mediated distensions in animal models.

Proper citation: Timed pressure control hardware and software for delivery of air mediated distensions in animal models (RRID:SCR_022363) Copy   

•   Source: SciCrunch Registry

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

Software tool as multi subject keypoint detection library for real time pose estimation.Used to track behavior of monkeys in natural environments, without disrupting their typical pattern of behavior. Deep learning software system for body, face, hands, and foot estimation in monkeys.

Proper citation: OpenPose (RRID:SCR_022362) Copy   

•   Source: SciCrunch Registry

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

Open source animal tracking software tool. Used to visually track movement of multiple animals at once.

Proper citation: TRex (RRID:SCR_022361) Copy   

•   Source: SciCrunch Registry

https://edspace.american.edu/openbehavior/project/3doc/

Project related to animals learned perform action in order to achieve reward. Fully 3D printable chamber able to perform operant conditioning using off-the-shelf, low-cost optical and electronic components, that can be reproduced rigorously in any laboratory equipped with 3D printer.

Proper citation: 3DOC (RRID:SCR_021547) Copy   

•   Source: SciCrunch Registry

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

Software tool enables closed loop behavioral experiments using deep learning based markerless, real time posture detection.Closed loop behavioral experiment toolkit using pose estimation of body parts.

Proper citation: DLStream (RRID:SCR_022359) Copy   

•   Source: SciCrunch Registry

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

Open source software package to support rt-fMRI via data in formats generated by Siemens, Philips, and GE. Used to support real time functional magnetic resonance imaging.

Proper citation: Pyneal (RRID:SCR_022333) Copy   

•   Source: SciCrunch Registry

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

Automated surgical instrument for brain tissue aspiration.Instrument for microendoscope implantation. Utilizes robotic control of needle connected to vacuum pump to aspirate brain tissue. System consists of robotic surgical instrument built around commercially available stereotaxic instrument and open source MATLAB-based GUI for control.

Proper citation: AutoStereota (RRID:SCR_022330) Copy   

•   Source: SciCrunch Registry

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

Open source video recording system for acquiring video data that is scalable, flexible, and affordable.Utilizes Raspberry Pi (RPi) miniature computer and 8-megapixel Camera Board that allows for greater manipulation of recording parameters. System may be accessed on GitHub.

Proper citation: Pi-based Remote Acquisition Technology for Motion Capture project (RRID:SCR_022325) Copy   

•   Source: SciCrunch Registry

https://edspace.american.edu/openbehavior/project/raspi-aud-generator/

Stimulation system for auditory EEG experiments using Raspberry Pi3 B+ board, HiFiBerry audio card to enhance sound quality and trigger tone latency, and custom Python library to generate auditory stimuli.

Proper citation: Raspberry Pi based auditory stimulus generator (RRID:SCR_022343) Copy   

•   Source: SciCrunch Registry

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

Software semi automated brain atlas based analysis pipeline for c-Fos immunohistochemical data. Used to analyze c-Fos in multiple brain regions simultaneously.

Proper citation: Atlas Based Analysis (RRID:SCR_022339) Copy   

•   Source: SciCrunch Registry

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

Interactive software for visualizing and uncovering function of circuits created from large scale fruit fly brain data. Interactive computing platform for studying function of executable circuits constructed from fruit fly brain data.

Proper citation: FlyBrainLab (RRID:SCR_022337) Copy   

•   Source: SciCrunch Registry

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

Open source, MATLAB based software for forced swim test and tail suspension test video analysis.

Proper citation: DBscorer (RRID:SCR_022334) Copy   

•   Source: SciCrunch Registry

https://edspace.american.edu/openbehavior/project/modular-led-displays/

Provides customized display systems used in neuroscientific studies in insects and other small animals. System includes custom built modular LED panels and software. LED panels of various sizes can be arranged/grouped in different shapes for diverse setups. System provides millisecond refresh, precise synchronization, customizable color combinations, and varied display configurations and addresses most technical challenges of small animal vision experiments and is thoroughly documented for replicability.

Proper citation: Modular LED Displays project (RRID:SCR_022704) Copy   

•   Source: SciCrunch Registry

https://edspace.american.edu/openbehavior/project/pi-usb-cam/

Project related to video recording.Provides system for high throughput video capture. Pi USB Cam system includes low cost Raspberry Pi microcomputer, DIY electronics peripherals, freely available open-source firmware, and custom 3D-printed casings.

Proper citation: Pi USB Cam project (RRID:SCR_022834) Copy   

•   Source: SciCrunch Registry

https://github.com/Whitlock-Group/HERBS

Open source, extendable, intuitive and interactive software platform for image visualisation and image registration. Python based GUI for histological E-data registration in brain space.

Proper citation: Histological E data Registration in rodent Brain Spaces (RRID:SCR_022776) Copy   

•   Source: SciCrunch Registry