Python scripts and jupyter notebooks for SMLM cluster and tracking analysis. ImageJ scripts were used for lattice light sheet tracking analysis and cell counting.
This code is a supplement to the publication Jungblut et al. 2023.
The analysis code is presented as Jupyter notebooks that make use of python 3.10, locan 0.13 and python-based libraries as outlined in the requirements.in or environment.yml files.
Requirements files with frozen version numbers are provided.
You can install all packages in a conda environment (we recommend using mamba)
mamba env create --file py310-environment.yml
or via pip
pip install -r py310-requirements.txt --no-deps
Distributed under the terms of the BSD-3 License, this code is free and open source software.