World Wide Series | Open Neuroscience - 21/05/2021 - Carsen Stringer
Channel: Openeuroscience
Date: 2021-05-21

World Wide Science is an ongoing effort to continue, expand and democratise science seminars. Explore our series here: https://www.world-wide.org/Neuro/Open-Source-Neuro/.

Today, we are delighted to host Carsen Stringer presenting:

"Suite2p: a multipurpose functional segmentation pipeline for cellular imaging".


 The combination of two-photon microscopy recordings and powerful calcium-dependent fluorescent sensors enables simultaneous recording of unprecedentedly large populations of neurons. While these sensors have matured over several generations of development, computational methods to process their fluorescence are often inefficient and the results hard to interpret. Here we introduce Suite2p: a fast, accurate, parameter-free and complete pipeline that registers raw movies, detects active and/or inactive cells (using Cellpose), extracts their calcium traces and infers their spike times. Suite2p runs faster than real time on standard workstations and outperforms state-of-the-art methods on newly developed ground-truth benchmarks for motion correction and cell detection.