Curator Dashboard

Software package for data analysis using bootstrap coupled estimation. Library combining Python, R, and MATLAB for estimation statistics.

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

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

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

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.

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

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.

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

Operant Box code

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

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.

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

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

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

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.

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

Software tool as generalist algorithm for cell and nucleus segmentation.

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

Software Pyton scripts to run computerised task of Reaction Time. Scripts, together with their instructions and scoresheets.Used for assessment of RTs that is freely available, compatible with all operating systems, without license and activation costs, and based on open source software platform.

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

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.

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

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.

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

Software Python package for visualizing and interacting with datasets registered to brain atlases. Used for visualization of neuroanatomical and morphological data.

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

Software data management pipeline for camera synchronization and combined data directories.

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

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.

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

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.

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

Core provides cytometry services for analysis and sorting of cells as well as expert consultation for experimental design and planning. Offers access to several analytical flow cytometers as well as high speed cell sorting. Training and technical expertise is available.

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

Facility is equipped with cell sorters, analyzers, ImageStream and full spectrum flow cytometer. Staff provides training and maintenance.

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

A plugin to estimate chromosome sizes from karyotype images.BSD 3-Clause "New" or "Revised" License. A plugin to estimate chromosome sizes from karyotype images.

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• RRID
• 4 years ago - submitted by Edyta Vieth

Provides software tool to explore, download and apply statistical models on aggregated data collected for Fox Insight online clinical study. Study collects patient reported outcomes and genetic data from people with Parkinson's disease and their loved ones.

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• dkNET
• 4 years ago - submitted by Maryann Martone