Huygens Imaging Academy

Reveal the truth within your microscopy image

About Interactive Analysis

Huygens contains multiple tools for interactive 2D-5D image analysis:

• Colocalization Analyzer: compute coefficients; 3D render and analyze iso-colocalization objects Learn more:
  • Colocalization Microscopy
  • Colocalization Coefficients
  • Noise- and blur- affected colocalization
  • Colocalization Basics
  • Object Colocalization
• Object Analyzer: compute statistics of 3D objects inside your image. Learn more:
  • Object Analyzer Tutorial
  • Object Analyzer References
• Object Tracker: wizard-based module for optimized object detection, fast track filtering and analysis.

High Content/Throughput image processing

Huygens contains multiple tools for batch processing

• Workflow Processor: design specific workflows for batch image processing
• Batch Feeder: fully automated on-the-fly processing
• HRM and Huygens Core: web/interface based schedular for batch processing and analysis

About Imaging and Microscopy

• How to acquire images optimally and how to correct imaging problems like UnderSampling, Clipping, Bleaching, Crosstalk, Chromatic Aberration:
  • Imaging Recommendations and Pitfalls
• Optical concepts:
  • Fluorescence Microscopes
  • Image Formation
    • Numerical Aperture
    • Pinhole Radius
    • 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

Microscopy image processing

• Background vs Black Level
• Signal To Noise Ratio
• Photon Noise
• True Deconvolution

About Volume Visualization

Volume visualization is the process of converting a 3D image into a 2D projection. Our algorithms support multi-threaded CPUs and GPU acceleration. The following interactive tools are available in Huygens:

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

About Deconvolution

• Deconvolution
  • Convolution and Deconvolution
  • Supported Microscope types
  • 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

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