Other Resources

• ENS specific: Barth et al., 2022; Paper and MATLAB code/data

• CaImAn: Python-based toolbox for analysing calcium imaging data. Comprehensive, but can be a bit hard to use as it doesn't really have a user interface. CaImAn is made accessible by the mesmerize package mentioned next.

• Mesmerize: Python-based and one of my favourites due to its modularity and how it makes CaImAn accessible.

  • mesmerize-core is the main application that can be used in Jupyter notebooks

  • mesmerize-viz provide a user interface so you don't have to enter commands

  There is a learning curve, but if you do a lot of calcium imaging, its worth persevering. The developers are extremely helpful too!

Extra coding effort:

• Kornia: https://kornia.readthedocs.io/en/latest/tracking.html