BearMind: A pipeline for batch examination & analysis of raw miniscopic neural data
Vladimir Sotskov, Nikita Pospelov, Viktor Plusnin, Artem Kirsanov, Konstantin Anokhin · FENS Forum 2024
Processing of large amounts of miniscopic data often poses a time-keeping procedure, requiring user’s efforts for step-by-step launching of various procedures, including manual intervention and inspection of putative neural units. The aim of this NoRMCorre- and CaImAn-based full-Python pipeline is to optimize users' efforts and time for batch miniscopic data processing. Instead of one-by-one analysis of each imaging session, here user should spend some time in the beginning, examining raw videos, specifying field of view and CaImAn parameters with a special interactive module, then launching t