flickerprint 1.0

FlickerPrint: Non-invasive measurement of biomolecular condensate mechanical properties from confocal microscopy images.

FlickerPrint

FlickerPrint is a software package for conducting flicker spectroscopy analysis to find the interfacial tension and bending rigidity of soft bodies such as biomolecular condensates and vesicles from their shape fluctuations in confocal microscopy images.

Prerequisites

FlickerPrint requires Python 3.9 to 3.11 and an installation of Java. Full details of how to install these prerequisites are available in the documentation.

Installation

FlickerPrint can be installed directly using pip:

python3 -m pip install flickerprint

To build the package from the source code, clone the Git repository, then navigate to the FlickerPrint/src directory of the repository and run:

python3 -m pip install -e .

Usage

FlickerPrint is primarily used through the command line. To see the available commands and options, run:

flickerprint --help

To create a new experiment, run:

flickerprint create-project <project_name>

To analyse a dataset, cd into the experiment directory and run:

flickerprint run [-c cores]

To visualise the results, run:

flickerprint view-output