Tools
Open source tools and analyses are a cost-effective means of promoting reproducible science. Here, I’ve included some links to analyses, build files, and electronics schematics for various open source tools which I’ve developped over the year. With each of these, I’ve also linked the manuscript in which it was presented.
FASTMAP
I am a developer of the FASTMAP ImageJ plug-in for the registration of biological images to atlases. You can view the eNeuro article for the package here.
PAW
I have designed PAW, a 3D-Printable Arduino-based Wheel logger. This system has proven to be a cost-effective and open-source alternative to the expensive and inflexibly designed commerical running wheels. You can view the HardwareX article for the package here.
Fiber Photometry Analyses
I have developped several pipelines for the analysis of fiber photometry data obtained from Doric Lenses and Neurophotometrics photometry systems.
The most comprehensive overview of these anayles has been documented in a STAR Protocols manuscript, which can be found here.
I’ve briefly outlined different applications below:
- Evans, Terstege et. al., 2022:
- Fiber Photometry during Contextual Fear Conditioning
- Neurophotometrics Photometry System
- ANY-Maze Behavioural Tracking
- Click here to access this GitHub repository
- Terstege et. al., 2023
- Fiber Photometry during Y Maze Forced Alternation Task
- Neurophotometrics Photometry System
- ANY-Maze Behavioural Tracking
- Click here to access this GitHub repository
- Dawson et. al., 2023
- Fiber Photometry during 3 Chamber Sociability Task
- Doric Lenses Photometry System
- ANY-Maze Behavioural Tracking
- Click here to access this GitHub repository
- Terstege et. al., 2023
- Fiber Photometry during Reciprocal Social Interaction Task
- Scripts available for analyses using data from Neurophotometrics and Doric Lenses Photometry Systems
- Videos recorded in ANY-Maze and then analyzed using SimBA and DeepLabCut.
- Click here to access this GitHub repository