About Microscopy

• Optical concepts
  • 3D Microscope
  • Fluorescence Microscopes
  • Image Formation
    • Numerical Aperture
    • Point Spread Function (PSF)
  • Sampling Density
    • UnderSampling and Nyquist Rate
    • Anti Aliasing and Aliasing Artifacts
  • Refractive Index Mismatch
    • Spherical Aberration: Mismatch Distorts Psf
    • Fishtank Effect
    • Total Internal Reflection

• Other concepts
  • Clipped Images
  • Bleaching Effects
  • Pinhole Radius
  • Optical Effects
  • Other Optical Concepts

• Microscopical image processing
  • 3D Image
  • BackGround vs Black Level
  • Signal To Noise Ratio
  • Photon Noise

About Deconvolution

• Deconvolution
  • Convolution and Deconvolution
  • Huygens Deconvolution
  • Image Restoration
  • Resolution Improvement
  • Restoration Examples

• Deconvolution Factors
  • Important Factors
  • Acquisition Pitfalls
  • Theoretical PSF Vs Experimental Psf
  • Recording Beads
  • Deconvolving Beads
  • Beads Deconvolution Example

• Non Optical Images
  • Deconvolution For Non Optical Images

• Post-restoration
  • Colocalization improvement: Colocalization Theory

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About Volume Visualization

Volume visualization is the process of converting a 3D image into a 2D projection. The goal is to visualize the data in a clear and interactive way to provide a good understanding of the data. Our algorithms are optimized for multi-threaded CPUs and starting from version 19.04 also support GPU acceleration for even faster rendering. In the Huygens Software, the following interactive tools are available:

• Fast Maximum Intensity Projection (MIP) rendering and animations: The MIP renderer
• Detailed, physically realistic volume rendering with the Simulated Fluorescence Process (SFP) algorithm: SFP Renderer
• Based on unique and fast Ray Tracing technology, the Surface Renderer combines iso-data continuous surface rendering and MIP rendering.
• The Huygens Moviemaker allows you to easily create sophisticated animations of your multi-channel 3D images using these powerful 3D renderers.
• Twin Slicer to navigate and compare XY, XZ, YZ slices of 4D images.

About Interactive Analysis

The Huygens software contains new tools for interactive analysis of 3D and 4D microscopic images:

• Colocalization Analyzer: compute established colocalization coefficients; visualize and analyze iso-colocalization objects
• Object Analyzer: compute statistics of individual objects inside a 3D image.
• Object Tracker: wizard-based module for optimized object detection, fast track filtering and track analysis.

See also the Visualization Definitions list.

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Huygens Documentation

About the Huygens Software

• What is the Huygens Software
• References to Huygens Software
• What's new in the current versions
• Test The Software, License String
• Download the Huygens software

Tutorials and Manuals

• User Manuals
• Huygens Installation

Recommended Reading

• Recommended reading

Support

• SVI Support
• Frequently Asked Questions
• Send Images to SVI if you have any problem with them
• Check the definitions page to get familiar with microscopic and Huygens terminology.

Scripting

• Available scripting commands.
• Online scripting manual Huygens Core Manual

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