/minian

miniscope analysis pipeline with interactive visualizations

Primary LanguagePythonGNU General Public License v3.0GPL-3.0

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MiniAn

MiniAn is an analysis pipeline and visualization tool inspired by both CaImAn and MIN1PIPE package specifically for Miniscope data.

Quick Start Guide

  1. Create a new conda env: conda create -y --name minian
  2. Activate the environment: conda activate minian
  3. Install MiniAn: conda install -y -c conda-forge minian
  4. Install the pipeline notebooks: minian-install --notebooks
  5. Optional install the demo movies: minian-install --demo
  6. Fire up jupyter: jupyter notebook and open the notebook "pipeline.ipynb"

Documentation

MiniAn documentation is hosted on ReadtheDocs at:

https://minian.readthedocs.io/

Contributing to MiniAn

We would love feedback and contribution from the community! See the contribution page for more detail!

License

This project is licensed under GNU GPLv3.