arcosPx-napari 0.1.1

A plugin to track spatio-temporal correlations in images

arcosPx-napari

Introduction

This repository contains a dedicated ARCOS.px plugin for the napari image viewer. It tracks spatio-temporal correlations in images as described in a publication of Grädel et al. Tracking Coordinated Cellular Dynamics in Time-Lapse Microscopy with ARCOS.px (link).

       

ARCOS.px is a computational method to identify and track clusters of correlated cell signaling in time-lapse microscopy images. It is the latest addition to the ARCOS ecosystem developed in the Cellular Dynamics Lab at the University of Bern.

Example tracking

Actin polymerization waves in REF52 fibroblasts treated with 50 ng/mL PDGF, 24h before imaging.

Installation

You can install arcosPx-napari via pip:

pip install arcosPx-napari

To install latest development version :

pip install git+https://github.com/pertzlab/arcosPx-napari.git

Contributing

Contributions are very welcome. Tests can be run with tox, please ensure the coverage at least stays the same before you submit a pull request.

License

Distributed under the terms of the BSD-3 license, "arcosPx-napari" is free and open source software

Issues

If you encounter any problems, please file an issue along with a detailed description.