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OpticStream provides Prefect-based workflows and utilities for processing large microscopy and imaging datasets, including LSM strips and PS-OCT tiles.

Documentation map

  • Getting started: installation, quickstart, and basic configuration.
  • Concepts: high-level overview, data processing pipeline, flows/state models, and acquisition watchers (design layer for LSM/OCT watch CLIs).
  • User guides: workflow-specific guides (LSM, PS-OCT), deployment, and troubleshooting.
  • Developer docs: architecture, code layout, CLI, testing, and contributing.
  • Reference: Python API and CLI command reference.