pyCyto — Python Cytotoxicity Pipeline¶
pyCyto is a Python workflow package for reproducible analysis of microscopic cytotoxicity assays. It provides a modular pipeline covering preprocessing, segmentation, tracking, and postprocessing — runnable locally or distributed across HPC clusters via SLURM.
Install pyCyto, set up a pipeline YAML, and run your first analysis. No development setup required.
Run existing pipelines on your data using Jupyter notebooks or YAML configuration files. Explore results interactively. See also: Architecture, Figure Gallery.
Deploy and run distributed pipelines on HPC. Manage data staging, SLURM job submission, and provenance.
Extend pyCyto with new pipeline modules. Follow the API contract, add docstrings, and run tests.
Full autodoc API reference for all cyto modules and classes.