CONTRACTIONWAVE: Dense optical flow software to quantify cellular contractility

Published: 6 July 2021| Version 1 | DOI: 10.17632/hswwzgw6rp.1
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Description

CONTRACTIONWAVE (CW) is a free software developed in Python Programming Language that allows the user to visualize, quantify, and analyze cell contractility parameters in a simple and intuitive format. The software enables the user to acquire membrane kinetics data of cell contractility during contraction-relaxation cycles through image capture and a dense optical flow algorithm. Both method and software were developed using multidisciplinary knowledge, which resulted in a robust data extraction protocol. CONTRACTIONWAVE was originally published in Scalzo et al., Dense optical flow software to quantify cellular contractility, Cell Reports Methods (2021), doi.org/10.1016/j.crmeth.2021.100044. Any use of CW should cite the paper. CW are distributed under the terms of the GNU General Public License version 2, and its source code is available at https://github.com/marceloqla/ContractionWavePy

Files

Steps to reproduce

Contractionwave can be installed from an executable file (Windows or Ubuntu) or from Anaconda environment installation (Mac-OS). GETTING STARTED: Installation - CW Executable file (Windows or Ubuntu) Step 1: In Experiment data files click on CONTRACTIONWAVE - Executable file (Windows or Ubuntu) folder and choose the Operating System to download. Step 2: Unpack the zip file Step 3: The extracted directory contains a library folder and one executable file (.exe for Windows) Step 4: Double-click the CW icon to start the executable file Wait until ContractionWave window open (it might take some time) System Requirements: CPU: Intel Celeron 800 MHz (Intel Core 2 Duo 2 GHz recommended); RAM: 256 MB (2 GB recommended); Available disk space: 200 MB; Operating system: Windows 7+ and Debian-based systems GETTING STARTED environment: Installation - CW Anaconda environment for Windows, Ubuntu or Mac-OS Installation instructions can be found in 3.2 section of File S1 published in the Cell Reports Methods - Cell Press 2021. For more details about the Contractionwave installation, and how to process data, please access the user manual provided as Methods S1 (User Manual) published in Scalzo et al.,2021, Cell Reports Methods: doi.org/10.1016/j.crmeth.2021.100044