Welcome to pyCyto’s Documentation!

pyCyto is a flexible and extensible Python-based workflow package designed for analyzing microscopic cytotoxicity assays. It enables researchers and bioimage analysts to build reproducible analysis pipelines using simple YAML configuration files. Key features include support for multi-channel images, integration with Dask for parallel processing, and a modular design covering preprocessing, segmentation, tracking, and postprocessing analysis.

The full documentation includes:

Table of Contents:

• Python Cytotoxicity Pipeline (pyCyto)
  • Processing Pipeline
  • Detailed Pipeline Steps & Features
  • Documentation
  • Example Data
  • Test Cases
  • Environment Setup
  • Package Installation
  • Usage
  • Development Guide
  • TODO
  • Authors
• pyCyto Analysis Pipeline
• Native Python Runtime Installation
  • CUDA Acceleration
  • Required Packages
  • Fiji
• Developer Guide for Cytotoxicity Pipeline
  • Custom Intermediate Output
  • Dask Support

Indices and Tables

• Index

• Module Index

• Search Page