Data Analysis Software

Software packages built for Python, R, MATLAB (Octave), and others. Most projects also feature user interfaces for ease of use even without coding experience.

Behavior Video Analysis software is for deriving behaviors from pre-recorded videos. Behavioral Data Analysis software is for analyzing data from apparatus (e.g. lickometers, levers). Neural Signal Analysis is specific to analyzing neural data, including calcium imaging, LFP, and single neurons.

Use the search bar in the upper right-hand corner to find specific projects.

ReachOut
ReachOut
Miniscope-LFOV
Miniscope-LFOV
3D-printed Hindlimb Stabilization Apparatus
3D-printed Hindlimb Stabilization Apparatus
Pybehave
Pybehave
E-Scope
E-Scope
HERBs: head-fixed environment for rodent behaviors
HERBs: head-fixed environment for rodent behaviors
Markerless Mouse Tracking for Social Experiments
Markerless Mouse Tracking for Social Experiments
SEB3R
SEB3R
FASTMAP
FASTMAP
WholeBrain
WholeBrain
MoSeq
MoSeq
Pipette Finding CNN
Pipette Finding CNN
Synaptic Vesicles Detection and Localization
Synaptic Vesicles Detection and Localization
HFOApp
HFOApp
Live Mouse Tracker Toolkit
Live Mouse Tracker Toolkit
Lightning Pose: a semi-supervised animal pose estimation algorithm, Bayesian post processing approach and deep learning package
Lightning Pose: a semi-supervised animal pose estimation algorithm, Bayesian post processing approach and deep learning package
PyMouseTracks: Adaptable Rodent Tracking System
PyMouseTracks: Adaptable Rodent Tracking System
LFP Monitoring: Multianimal Chronic Video Platform for Behavioral Scoring
LFP Monitoring: Multianimal Chronic Video Platform for Behavioral Scoring
Brainways: An Open-Source AI-based Software For Registration and Analysis of Fluorescent Markers on Coronal Brain Slices
Brainways: An Open-Source AI-based Software For Registration and Analysis of Fluorescent Markers on Coronal Brain Slices
LIQ HD
LIQ HD
AnimalTA
AnimalTA
JAX Animal Behavior System (JABS)
JAX Animal Behavior System (JABS)
RatInABox
RatInABox
BehaviorDEPOT
BehaviorDEPOT
Closing the loop in legged neuromechanics: An open-source computer vision controlled treadmill
Closing the loop in legged neuromechanics: An open-source computer vision controlled treadmill
M3 Platform: The McGill-Mouse-Miniscope Touchscreen Behavior Platform
M3 Platform: The McGill-Mouse-Miniscope Touchscreen Behavior Platform
CaT-z: 3D Tracking and Automatic Classification of Rodent Behavior
CaT-z: 3D Tracking and Automatic Classification of Rodent Behavior
WRAQ
WRAQ
Pynapple
Pynapple
MouBeAt
MouBeAt
OpBox
OpBox
ACTman: Automated preprocessing and analysis of actigraphy data
ACTman: Automated preprocessing and analysis of actigraphy data
DANNCE
DANNCE
LiftPose3D
LiftPose3D
Anipose
Anipose
Rtrack and ColonyTrack
Rtrack and ColonyTrack
pyPhotometry
pyPhotometry
3D Printed Superfusion Chamber
3D Printed Superfusion Chamber
SpikeInterface
SpikeInterface
USVCAM
USVCAM
JARVIS
JARVIS
Modular LED Displays
Modular LED Displays
Minian
Minian
pMAT (photometry modular analysis tool)
pMAT (photometry modular analysis tool)
LED Zappelin’
LED Zappelin’
GoFish
GoFish
SHARCQ
SHARCQ
VAME: Variational Embedding of Animal Motion
VAME: Variational Embedding of Animal Motion
SipperViz
SipperViz
DLStream
DLStream
CellExplorer
CellExplorer
AutomaticSleepScoringTool
AutomaticSleepScoringTool
PavCA
PavCA
SIPEC
SIPEC
Multiple Monkey Pose Estimation with OpenPose
Multiple Monkey Pose Estimation with OpenPose
CLARA
CLARA
TweetyNet
TweetyNet
TRex
TRex
Pycro-Manager
Pycro-Manager
AlphaTracker
AlphaTracker
SeqSeek
SeqSeek
GuPPy
GuPPy
Webcam-Based Online Eye-Tracking for Behavioral Research
Webcam-Based Online Eye-Tracking for Behavioral Research
ABA: Atlas-Based Analysis
ABA: Atlas-Based Analysis
FlyBrainLab
FlyBrainLab
GazeMetrics
GazeMetrics
Cellpose
Cellpose
DABEST and permuco
DABEST and permuco
Brainrender
Brainrender
COMPASS
COMPASS
PAWS
PAWS
MARS, MARS-Developer, and BENTO
MARS, MARS-Developer, and BENTO
DeepEthogram
DeepEthogram
EZcalcium
EZcalcium
SLEAP, LEAP, and MotionMapper
SLEAP, LEAP, and MotionMapper
BonZeb
BonZeb
DeepPoseKit
DeepPoseKit
Open Skinner Box
Open Skinner Box
Pypreclin
Pypreclin
NeuroChaT
NeuroChaT
Open-tES
Open-tES
D-Track
D-Track
DeepLabCut
DeepLabCut
Locomouse
Locomouse
FaceSync
FaceSync
RAVE
RAVE
BrainGlobe
BrainGlobe
LinCoM
LinCoM
openEyeTrack
openEyeTrack
Catalepsy Bar
Catalepsy Bar
PiDose
PiDose
DeepFly3D
DeepFly3D
MNE Scan
MNE Scan
Rodent Arena Tracker (RAT)
Rodent Arena Tracker (RAT)
SpikeForest
SpikeForest
neurotic
neurotic
PASTA
PASTA
Toolboxes for Spike and LFP Analysis
Toolboxes for Spike and LFP Analysis
Open Source Whisking Video Database
Open Source Whisking Video Database
Open Source Joystick
Open Source Joystick
Robotic Flower System for Bee Behavior
Robotic Flower System for Bee Behavior
OpenMonkeyStudio
OpenMonkeyStudio
Rigbox
Rigbox
SimBA: simple behavior analysis
SimBA: simple behavior analysis
B-soID: unsupervised behavior analysis
B-soID: unsupervised behavior analysis
AutoPilot: python framework for behavior experiments with raspberry pi
AutoPilot: python framework for behavior experiments with raspberry pi
Oat: online animal tracker
Oat: online animal tracker
An automated behavioral box to assess forelimb function in rats
An automated behavioral box to assess forelimb function in rats
Automated Home-Cage Rodent Two-bottle Choice Test
Automated Home-Cage Rodent Two-bottle Choice Test
LocoWhisk and ART
LocoWhisk and ART
SpikeGadgets
SpikeGadgets
Pathfinder
Pathfinder
RAD
RAD
MouseMove
MouseMove
optoPAD and flyPAD
optoPAD and flyPAD
DeepBehavior
DeepBehavior
ezTrack
ezTrack
Low Cost Open Source Eye Tracking
Low Cost Open Source Eye Tracking
Automated Classification of Self-grooming in Mice
Automated Classification of Self-grooming in Mice
AutonoMouse
AutonoMouse
Stytra
Stytra
Phenopy
Phenopy
Cerebro Wireless Optogenetic System
Cerebro Wireless Optogenetic System
Telemetry System for Recording EEG
Telemetry System for Recording EEG
Actifield
Actifield
CAVE
CAVE
idtracker.ai
idtracker.ai
Worm Behavior Platform
Worm Behavior Platform
Mousecam
Mousecam
CaImAn
CaImAn
Dual-port Lick Detector
Dual-port Lick Detector
DeepSqueak
DeepSqueak
ELOPTA
ELOPTA
Live Mouse Tracker
Live Mouse Tracker
PsiBox
PsiBox
Multi-channel Fiber Photometry
Multi-channel Fiber Photometry
KineMouse Wheel
KineMouse Wheel
EthoWatcher
EthoWatcher
VASIC
VASIC
NeuroMatic
NeuroMatic
Argus
Argus
Picamera
Picamera
An opensource lickometer and microstructure analysis program
An opensource lickometer and microstructure analysis program
Microwave-based Homecage Motion Detector
Closed-Loop System
Closed-Loop System
Head-Fixed Setup for Combined Behavior, Electrophysiology, and Optogenetics
Head-Fixed Setup for Combined Behavior, Electrophysiology, and Optogenetics
ToxTrac
ToxTrac
MedParse
MedParse
Automated mouse homecage two-bottle choice test
Automated mouse homecage two-bottle choice test
FaceMap
FaceMap
Ethoscopes
Ethoscopes
Open-source touch-screen for rodent behavioral testing
Open-source touch-screen for rodent behavioral testing
LocoWhisk
LocoWhisk
ZebraTrack
ZebraTrack
Pyper
Pyper
3DTracker
3DTracker
Mousetrap
Mousetrap
M-Track
M-Track
OptiMouse
OptiMouse
Open Source platform for Sensory Tasks
Open Source platform for Sensory Tasks
Autoreward2
Autoreward2
FinchScope
FinchScope
Automated Rodent Tracker (ART)
Automated Rodent Tracker (ART)
Pixying Behavior
Pixying Behavior
Open Ephys
Open Ephys
Eco-HAB
Eco-HAB
BPM Biosignals
BPM Biosignals
Attys
Attys
Ultrasonic Vocalization (USV) Detector
Ultrasonic Vocalization (USV) Detector
Behavioral Observation Research Interactive Software (BORIS)
Behavioral Observation Research Interactive Software (BORIS)
Bonsai
Bonsai
Scintillate
Scintillate
Quantifying Animal Movement from Pre-recorded Videos
Quantifying Animal Movement from Pre-recorded Videos
Oculomatic Eye-Tracking
UCLA Miniscope
UCLA Miniscope
Laubach Lab GitHub Repository
Laubach Lab GitHub Repository
Wave Surfer
Wave Surfer
Hao Chen Lab Repository
Hao Chen Lab Repository
ArduiPod Box
ArduiPod Box
Feldman Lab Lickometer
Feldman Lab Lickometer
Feeding Experimentation Device
Feeding Experimentation Device

Have a project that fits these categories? Email us at openbehavior@gmail.com