DataJoint Element for Functional Calcium Imaging

DataJoint Element for functional calcium imaging with support for ScanImage, Scanbox, Nikon NIS-Elements, and Bruker Prairie View acquisition software; and Suite2p, CaImAn, and EXTRACT analysis software. DataJoint Elements collectively standardize and automate data collection and analysis for neuroscience experiments. Each Element is a modular pipeline for data storage and processing with corresponding database tables that can be combined with other Elements to assemble a fully functional pipeline. This repository also provides a tutorial environment and notebooks to learn the pipeline.

Getting Started

• Please fork this repository

• Clone the repository to your computer

  git clone https://github.com/<enter_github_username>/element-calcium-imaging.git

• Install with pip

  pip install -e .

• Interactive tutorial on GitHub Codespaces

• Documentation

Support

• If you need help getting started or run into any errors, please open a GitHub Issue or contact our team by email at [email protected].

Eflab Specifics