First steps for presentation and analysis of calcium imaging data

Description

Calcium imaging is a widely used tool in neuroscience, and our community now has access to multiple computational tools to process and analyze these data. However, significant portion of work with imaging data relies on much simpler approaches than offered in these software packages. Correlation with stimuli or behavior, detection of periodic activity, dimensionality reduction, and other basic approaches can be straight-forward for researchers seasoned in data analysis, but unfamiliar to larger community of experimental neuroscientists. Here we provide examples of such analysis using Python language together with sample open-access datasets. We discuss questions addressed with standard algorithms and offer documented Jupiter notebooks ready to be adapted for other data.

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