Calcium Imaging Data Analysis

Calcium imaging is an increasingly popular experimental method that enables monitoring of large, targeted, neural populations in alive and behaving animals. This microscopy method offers an indirect signal that needs to be preprocessed for the extraction of the actual neural population activity.

Advances in microscopy techniques have enabled experiments with data rates that can reach hundreds of gigabytes in a single day, posing significant challenges in terms of handling and processing. We develop algorithms and open source software for dealing with the universal preprocessing problems in calcium imaging data analysis (motion correction, source extraction and neural activity deconvolution) in a large scale.