Curator Dashboard

Shared Resource that offers bioinformatics and informatics services for basic research and clinical projects.

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

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.

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

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.

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

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.

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

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.

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

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

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

Software tool as single neural network model that learns how to segment spectrograms of birdsong into annotated syllables.

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

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.

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• RRID
• 4 years ago - submitted by Samantha White

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.

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• RRID
• 4 years ago - submitted by Samantha White

Provides expertise and access to instruments for study of structures and interactions of biological macromolecules such as proteins, nucleic acids, lipids, and complexes. Facility supports both discovery based research and assay development for translational applications. Offers to use equipment independently or with the help of faculty who have expertise in each method.

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

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.

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

Software tool to extract relevant features from images and use time series of these features to classify whether given behavior is present in each frame of video recording.machine learning pipeline for supervised behavior classification from raw pixels. Performs action recognition ,automated behavior classification, over frames. Used for automated behavior classification to detect and track behavior over time.

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

Software package for MATLAB that makes motion correction, segmentation, signal extraction and dimension reduction, analysis, and visualization of calcium imaging data easy to implement. Open source toolbox for analysis of calcium imaging data.

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

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

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

MRI compatible microdrive that can precisely position electrodes without causing significant imaging artifacts.

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

Software tool as novel tracking algorithm that combines deep learning and background subtraction.

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

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.

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

3D printed device for stereotaxic viral delivery into brains of neonatal mice.Used for stable and precise stereotaxic surgery in neonatal mice.

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

Software Matlab based tool to visualize and analyze multimodal datasets.

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

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.

• Resource
• SciCrunch
• 4 years ago - submitted by Edyta Vieth