Welcome to the documentation for napari-stress! This ressource provides information, links and examples to navigate and use the functionality of napari-stress, which provides the code for Gross et al. (2021): STRESS, an automated geometrical characterization of deformable particles for in vivo measurements of cell and tissue mechanical stresses.
Functions: Overview about modular functions in napari-stress and how to use them from code or interactively from the napari viewer.
Toolboxes: Key feature for retrieving all measurements napari-stress has to offer with minimal amount of coding/interactive analysis.
Workflows: Set of workflows, the entirety of which make up the functionality that is embedded in the toolboxes.
Utilities: Other interesting pieces of code or widgets.
In order to make napari-stress on your machine, you can follow these tutorials:
Getting started with Python and Anaconda: If you have not yet installed Python or Anaconda on your computer, this explains how to set it up and create an environment that contain the most basic functionality (napari & Jupyterlab)
Devbio-napari: Not strictly necessary but strongly recommended - this package brings many handy functionalities to an otherwise quite plain napari-viewer.
After both of these are installed, install napari-stress into the environment you created by typing
pip install napari-stress
in your Anaconda prompt. If you encounter any issues during installation, please
browse the FAQ section for known issues
file an issue on github
check out the image.sc forum for help (Please tag @EL_Pollo_Diablo to notify the developers)