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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | ||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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Behavior Ensemble and Neural Trajectory Observatory Resource Report Resource Website 1+ mentions |
Behavior Ensemble and Neural Trajectory Observatory (RRID:SCR_022348) | BENTO | data analysis software, data processing software, software application, software resource | Software Matlab based tool to visualize and analyze multimodal datasets. | OpenBehavior, behavioral data analysis, neural signal analysis, video analysis, offline analysis software |
is listed by: OpenBehavior has parent organization: Northwestern University; Illinois; USA |
DOI:10.7554/eLife.63720 | Free, Available for download, Freely available | https://github.com/neuroethology/bentoMAT | SCR_022348 | SciCrunch Registry | 2026-10-31 12:18:46 | 1 | |||||||
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MARS Developer Resource Report Resource Website |
MARS Developer (RRID:SCR_022346) | data analysis software, data processing software, software application, software resource | Software MARS based Python pipeline used for detection, pose estimation and behavior classification in experiments of any format. Repository contains all the code you'll need to train your own version of MARS. | OpenBehavior, behavior measurement, freely-moving, video analysis, realtime recording and analysis, offline analysis software |
is listed by: OpenBehavior is related to: Mouse Action Recognition System has parent organization: Northwestern University; Illinois; USA |
DOI:10.7554/eLife.63720 | Free, Available for download, Freely available | https://edspace.american.edu/openbehavior/project/neuroethology-tools/ | SCR_022346 | SciCrunch Registry | 2026-10-31 12:18:38 | 0 | ||||||||
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LED Matrix Stimuli Resource Report Resource Website |
LED Matrix Stimuli (RRID:SCR_022345) | data or information resource, instrument resource, portal, project portal | Open source device consists of three LED matrices that can be independently controlled via open source Arduino Uno microcontroller. Matrices of LEDs are mounted above nose pokes to examine perceptual decision making in rats. Highly modifiable LED matrices for visual stimulus presentation in behavioral studies.Designs for printing these accessory devices are available in GitHub account for the project. | OpenBehavior, Instrument, device, behavior apparatus, behavioral task, perceptual decision making in rats |
is listed by: OpenBehavior has parent organization: American University; Washington D.C.; USA |
DOI:10.1523/ENEURO.0563-20.2021 | Free, Freely available | https://github.com/LaubachLab/LED-matrices | SCR_022345 | SciCrunch Registry | 2026-10-31 12:18:38 | 0 | ||||||||
|
Closed Loop Automated Reaching Apparatus Resource Report Resource Website 1+ mentions |
Closed Loop Automated Reaching Apparatus (RRID:SCR_022365) | CLARA | data or information resource, instrument resource, portal, project portal | Closed loop automated reaching apparatus for interrogating complex motor behaviors.Mechanical components include behavior box, series of cameras, and food pellet dispenser. Single workstation computer manages cameras, communicates with microcontroller, and analyzes mouse behavior in real time using modules extracted from DeepLabCut. Integrates fully automated, markerless kinematic tracking of multiple features to classify animal behavior and delivers neural stimulation based on behavioral outcomes. CLARA is compatible with advanced neurophysiological tools, enabling testing of neurostimulation devices and identification of novel neurological biomarkers.System fully automates trial initiation and pellet delivery and is capable of accurately delivering stimulation in response to trial outcome with short latency. | OpenBehavior, Instrument, interrogating complex motor behaviors apparatus, mouse behavior apparatus, markerless kinematic tracking, kinematic data, animal behavior, neural stimulation |
is listed by: OpenBehavior is related to: Behavioral Segmentation of Open-field in DeepLabCut has parent organization: University of Colorado School of Medicine; Colorado; USA |
DOI:10.1088/1741-2552/ac1ed1 | Free, Freely available | https://github.com/wryanw/CLARA_DLC | SCR_022365 | SciCrunch Registry | Closed Loop Automated Reaching Apparatus Project | 2026-10-31 12:18:47 | 1 | ||||||
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TweetyNet Resource Report Resource Website |
TweetyNet (RRID:SCR_022360) | data processing software, image analysis software, segmentation software, software application, software resource | Software tool as single neural network model that learns how to segment spectrograms of birdsong into annotated syllables. | OpenBehavior, automated annotation, bengalese finches, canaries, neural network, song syntax, sound event detection, segment spectrograms, birdsong, annotated syllables | is listed by: OpenBehavior | DOI:10.7554/eLife.63853 | Free, Available for download, Freely available | https://github.com/yardencsGitHub/tweetynet/tree/0.7.0 | SCR_022360 | SciCrunch Registry | TweetyNet project | 2026-10-31 12:18:45 | 0 | |||||||
|
CellExplorer Resource Report Resource Website 10+ mentions |
CellExplorer (RRID:SCR_022358) | 1d time-series analysis software, data analysis software, data processing software, software application, software resource, time-series analysis software | Open source framework for single cell characterization and visualization.Graphical user interface, standardized processing module and data structure for exploring and classifying single cells acquired using extracellular electrodes. | OpenBehavior, single cell characterization and visualization, classifying single cells, extracellular electrodes | is listed by: OpenBehavior | DOI:10.1016/j.neuron.2021.09.002 | Free, Available for download, Freely available | https://edspace.american.edu/openbehavior/project/cellexplorer/, https://github.com/petersenpeter/CellExplorer | SCR_022358 | SciCrunch Registry | 2026-10-31 12:18:38 | 21 | ||||||||
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Pycro Manager Resource Report Resource Website 1+ mentions |
Pycro Manager (RRID:SCR_022356) | data acquisition software, data processing software, software application, software resource | Open source software for customized and reproducible microscope control. Software Python package that enables control of micro-manager as well as development of customized experiments integrated with real-time image processing. | OpenBehavior, microscope control, image processing, micro manager | is listed by: OpenBehavior | DOI:10.1038/s41592-021-01087-6 | Free, Available for download, Freely available | https://github.com/micro-manager/pycro-manager | SCR_022356 | SciCrunch Registry | 2026-10-31 12:18:47 | 3 | ||||||||
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Cellpose Resource Report Resource Website 10+ mentions |
Cellpose (RRID:SCR_022332) | data processing software, image analysis software, segmentation software, software application, software resource | Software tool as generalist algorithm for cell and nucleus segmentation. | OpenBehavior, Data Analysis, cell and nucleus segmentation | is listed by: OpenBehavior | DOI:10.1038/s41592-020-01018-x | https://github.com/mouseland/cellpose | SCR_022332 | SciCrunch Registry | 2026-10-31 12:18:38 | 21 | |||||||||
|
COMPASS Resource Report Resource Website 100+ mentions |
COMPASS (RRID:SCR_022329) | data or information resource, instrument resource, portal, project portal | Non invasive, infrared activity and sleep measurement system that uses passive infrared sensors and Arduino microprocessor. Publication provides protocol for assembling COMPASS as well as provides support protocols and python scripts for data analysis, best practices for optimum results, troubleshooting, and alternative protocols for different use scenarios. | OpenBehavior, Instrument, behavior apparatus, behavior measurement, sleep tracking, infrared sensors, Arduino microprocessor | is listed by: OpenBehavior | DOI:10.1002/cpmo.81 | https://github.com/MRC-Harwell/sleep-tracking | SCR_022329 | SciCrunch Registry | Continuous Open Mouse Phenotyping of Activity and Sleep Status | 2026-10-31 12:18:38 | 265 | ||||||||
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Brainrender Resource Report Resource Website 1+ mentions |
Brainrender (RRID:SCR_022328) | data processing software, data visualization software, software application, software resource, software toolkit | Software Python package for visualizing and interacting with datasets registered to brain atlases. Used for visualization of neuroanatomical and morphological data. | OpenBehavior, neuroanatomical and morphological data visualization |
is listed by: OpenBehavior is related to: Allen Institute for Brain Science |
DOI:10.7554/eLife.65751 | Free, Available for download, Freely available | https://github.com/brainglobe/brainrender | SCR_022328 | SciCrunch Registry | 2026-10-31 12:18:38 | 7 | ||||||||
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TetrODrive Resource Report Resource Website |
TetrODrive (RRID:SCR_022326) | data or information resource, instrument resource, portal, project portal | 3D printed microdrive for electrophysiology and optophysiology. Consists of main body and head. Used for in vivo tetrode recording, optical imaging, and optogenetic manipulation in freely moving mice.Design files and build instructions for this device can be found on TetrODrive GitHub.Microdrive can be assembled in 15 min and price for all materials, including 3D printer, is lower than single commercial microdrive. | OpenBehavior, Instrument, microdrive, behavior measurement, freely moving, neural recording, electrical recording, optical imaging, neural modulation, optogenetics | is listed by: OpenBehavior | DOI:10.1088/1741-2552/abf608 | Free, Freely available | https://github.com/MarcelMB/TetrODrive | SCR_022326 | SciCrunch Registry | 2026-10-31 12:18:46 | 0 | ||||||||
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Florida research open source synchronization tool Resource Report Resource Website |
Florida research open source synchronization tool (RRID:SCR_022344) | FROST | data or information resource, instrument resource, portal, project portal | Open source system built around Arduino based microcontroller for analog and digital input and synchronization combined with custom printed circuit board. Hardware and Arduino-based firmware used to synchronize experimental and electrophysiological data. | OpenBehavior, Instrument, device, synchronization tool, electrophysiology experiments, neural signal analysis, neural recording, electrical recording, synchronizing experimental and electrophysiological data. |
is listed by: OpenBehavior has parent organization: University of Florida; Florida; USA |
DOI:10.1016/j.jneumeth.2020.108800 | Free, Freely available | https://github.com/Brain-Mapping-Lab/FROST | SCR_022344 | SciCrunch Registry | FROST project | 2026-10-31 12:18:46 | 0 | ||||||
|
VocalMat Resource Report Resource Website 1+ mentions |
VocalMat (RRID:SCR_022342) | data analysis software, data processing software, software application, software resource | Software MATLAB based toolbox for automated quantitative analysis of ultrasonic vocalizations. Utilizes image processing libraries to detect USVs and computational vision and machine learning algorithms to classify detected USVs. Used for analysis of ultrasonic vocalizations from mice using computer vision and machine learning. | OpenBehavior, ultrasonic vocalizations, mice, behavioral data analysis | is listed by: OpenBehavior | DOI:10.7554/eLife.59161 | Free, Available for download, Freely available | https://github.com/ahof1704/VocalMat | SCR_022342 | SciCrunch Registry | 2026-10-31 12:18:38 | 1 | ||||||||
|
Permuco Resource Report Resource Website 1+ mentions |
Permuco (RRID:SCR_022341) | data analysis software, data processing software, software application, software resource | Software R package for permutation test in linear model with nuisances variables.Used for permutation testing in regression, ANOVA, and comparison of signals. | OpenBehavior, permutation testing in regression | is listed by: OpenBehavior | DOI:10.18637/jss.v099.i15 | Free, Available for download, Freely available | https://edspace.american.edu/openbehavior/project/dabest-and-permuco/, https://github.com/jaromilfrossard/permuco | SCR_022341 | SciCrunch Registry | 2026-10-31 12:18:38 | 4 | ||||||||
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DABEST Resource Report Resource Website 1+ mentions |
DABEST (RRID:SCR_022340) | data analysis software, data processing software, software application, software resource | Software package for data analysis using bootstrap coupled estimation. Library combining Python, R, and MATLAB for estimation statistics. | OpenBehavior, bootstrap coupled estimation, estimation statistics | is listed by: OpenBehavior | DOI:10.1038/s41592-019-0470-3 | Free, Available for download, Freely available | https://edspace.american.edu/openbehavior/project/dabest-and-permuco/ | SCR_022340 | SciCrunch Registry | Data Analysis with Bootstrapped ESTimation | 2026-10-31 12:18:46 | 8 | |||||||
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GazeMetrics Resource Report Resource Website |
GazeMetrics (RRID:SCR_022338) | data analysis software, data processing software, software application, software resource | Software tool for data extraction and computation of spatial accuracy and precision of head mounted display based eye trackers. Allows for significant customization without altering source code but changes to the code allow for further alteration. | OpenBehavior, eye tracking, behavioral measure, head mounted display based eye trackers, data samples extraction, accuracy and precision calculation |
is listed by: OpenBehavior has parent organization: University of Nevada at Reno; Nevada; USA |
DOI:10.1145/3379156.3391374 | Free, Available for download, Freely available | https://github.com/isayasMatter/GazeMetrics | SCR_022338 | SciCrunch Registry | 2026-10-31 12:18:38 | 0 | ||||||||
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pyOS-5 project Resource Report Resource Website |
pyOS-5 project (RRID:SCR_022335) | data or information resource, instrument resource, portal, project portal | Open source operant box system optimized for use with tethered animals. System includes hardware and software. Control electronics are build on pyControl, controlling custom PCB integrating 5 infra-red break-beam sensors and 5 stimulus LEDs, single nose-poke for reward receptacle, stepper motor for control of custom peristaltic pump for reward delivery, audio board for tone generation through attached speaker, house light and fan, LED driver for optogenetic stimulation, and bidirectional communication with external devices via TTL pulses. | OpenBehavior, Instrument, operant box system, tethered animals, behavior apparatus, neurophysiology |
is listed by: OpenBehavior is related to: pyOS-5 |
DOI:10.1038/s41598-021-01717-1 | Free, Freely available | SCR_022335 | SciCrunch Registry | Python based operant box system in 5-choice design, pyOS-5 | 2026-10-31 12:18:46 | 0 | ||||||||
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LED Zappelin’ Resource Report Resource Website 1+ mentions |
LED Zappelin’ (RRID:SCR_022560) | data or information resource, portal, topical portal | Open source LED controller for arbitrary spectrum visual stimulation and optogenetics during 2 photon imaging. Device that rapidly time interleaves stimulation and detection epochs during two photon imaging. | Instrument, OpenBehavior, LED controller, arbitrary spectrum visual stimulation, optogenetics, two photon imaging, stimulation and detection, behavioral neuroscience |
is listed by: OpenBehavior has parent organization: University of Sussex; Brighton; United Kingdom |
PMID:35498254 | Free, Freely available | https://edspace.american.edu/openbehavior/project/led-zappelin/ | SCR_022560 | SciCrunch Registry | 2026-10-31 12:18:40 | 1 | ||||||||
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USVCAM Resource Report Resource Website |
USVCAM (RRID:SCR_022747) | data or information resource, instrument resource, portal, project portal | Open source acoustic camera system for measuring ultrasound communication in rodents. System includes small phased microphone array combined with camera and comprises USV segmentation algorithms with modification for overlapping vocalizations that results in high accuracy. Enables simpler and faster USV localization and assignment. | OpenBehavior, instrument, acoustic camera system, measuring ultrasound communication in rodents |
is listed by: OpenBehavior has parent organization: University of Toyama; Toyama; Japan |
PMID:35982786 | Free, Freely available | https://edspace.american.edu/openbehavior/?s=USVCAM | SCR_022747 | SciCrunch Registry | USVCAM project, ultrasonic vocalizations camera | 2026-10-31 12:18:41 | 0 | |||||||
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Minian Resource Report Resource Website 1+ mentions |
Minian (RRID:SCR_022601) | data analysis software, data processing software, software application, software resource, software toolkit | Software miniscope analysis pipeline that requires low memory and computational demand so it can be run without specialized hardware. Offers interactive visualization that allows users to see how parameters in each step of pipeline affect output. | Miniscope, analysis pipeline, calcium imaging, mouse, Visualization, OpenBehavior |
is listed by: OpenBehavior has parent organization: Icahn School of Medicine at Mount Sinai; New York; USA |
NIA F32AG067640; NIBIB R01EB028166; NIDA R21 DA049568; NIMH DP2MH122399; NIMH R01MH120162; NINDS R01 NS116357; NINDS R03 NS111493; NINDS U01NS094286; NSF 1700408; NSF 1926800; NSF 2046583 |
PMID:35642786 | Free, Available for download, Freely available | https://edspace.american.edu/openbehavior/project/minian/ | SCR_022601 | SciCrunch Registry | 2026-10-31 12:18:49 | 6 |
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