Suite2p: a multipurpose functional segmentation pipeline for cellular imaging
Schedule
Friday, May 21, 2021
07:00 UTC
Carsen Stringer
Dr.
HHMI Janelia Research Campus
Host: Open Source Neuro
Recording
Open recording
Event Information
Recording
Available
Host
Open Source Neuro
Duration
70 minutes
Abstract
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.
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