Workshop "CaImAn: An open source tool for scalable Calcium Imaging data Analysis" by Dr Andrea Giovannucci
CaImAn: An open source tool for scalable Calcium Imaging data Analysis
Advances in fluorescence microscopy enable monitoring larger brain areas in-vivo with fine temporal and spatial resolution. The resulting data rates require reproducible analysis pipelines that are reliable, fully automated, and scalable to datasets generated over the course of months. CaImAn is an open-source library for calcium imaging data analysis that provides automatic and scalable methods to address problems common to pre-processing, including motion correction, neural activity identification, and registration across different sessions of data collection. CaImAn also enables real-time analysis on streaming two-photon imaging data, and therefore opens the path to novel closed-loop experiments. The tutorial will introduce the theory underlying calcium imaging data analysis in CaImAn and demonstrate two typical use-case scenarios.
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