User-friendly software for motion-correcting calcium imaging videos, automatically finding ROIs using the CNMF method and manually refining them. This software uses the CaImAn package under the hood for motion correction, ROI finding, and refinement of ROIs. Optionally, the suite2p package can also be used for ROI finding.
This software requires Python 3 and the following modules:
- CaImAn (and all of its required modules – see the CaImAn repository for installation instructions)
- (Optional) suite2p (see the suite2p repository for installation instructions)
- numpy
- matplotlib
- scikit-image
- scipy
- opencv-python
- PyQt5
- keras