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Getting Started

  • Quick Start Guide
  • Software Installation
  • I Want To…

User Guide

  • Supported Hardware
  • Supported File Formats
  • User Interface Walkthrough
  • Setting Up A Microscope
  • Acquiring Data
    • Acquiring Data
    • Reconfigurable Acquisitions Using Features
    • Example Feature Lists
    • Currently Implemented Features
  • Case Studies

Development

  • Contributing Guidelines
  • Developer Install
  • Software Architecture
  • Feature Container
  • REST-API
  • Plugin Architecture

Troubleshooting & Known Issues

  • Troubleshooting
  • Known Issues

Plugins

  • navigate Plugin Template
  • navigate Confocal Projection
  • navigate at Scale
  • navigate Constant Velocity Acquisition
  • navigate MMCore
  • navigate ilastik Server
  • navigate Photoactivation

Reference

  • Implemented Microscopes
  • Software API
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  • Acquiring Data
  • View page source

Acquiring Data

  • Acquiring Data
    • Standard Acquisition Modes
    • Analysis Pipeline
  • Reconfigurable Acquisitions Using Features
    • What are features?
    • Customizing Feature Functionality in the GUI
    • Creating a Custom Feature List in the GUI
    • Editing Feature Lists on the Fly
    • Deleting Feature Lists
    • Text Representation of Feature Lists
    • Loading Custom Functions
  • Example Feature Lists
    • Multi-Position Imaging with Automated Autofocus
    • Time-Lapse Imaging with Automated Autofocus
  • Currently Implemented Features
    • navigate.model.features.adaptive_optics
    • navigate.model.features.auto_tile_scan
    • navigate.model.features.autofocus
    • navigate.model.features.common_features
    • navigate.model.features.image_writer
    • navigate.model.features.remove_empty_tiles
    • navigate.model.features.restful_features
    • navigate.model.features.volume_search
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