Analysis Options

Available starting from 1620€ / 1990$ ex VAT

Several interactive analysis tools are available for Huygens to accurately perform 3D-4D measurements, and to obtain and export statistics about object(s), colocalization, and cell/object trajectories.

Screen shot Description
Colocalization Analyzer 1510 The Colocalization Analyzer.

The Colocalization Analyzer provides quantitative information about the amount of spatial overlap between different data channels, in 3D stacks or 3D time series. Huygens gives you the colocalization coefficients most commonly used in literature: Pearson, Overlap, Spearman, and Manders M and K. Also local statistics of the colocalizing regions can be calculated and visualized. An optional 'Replicate-Based Noise Corrected Correlation (RBNCC) tool can be added to correct the contribution of noise to the Pearson and Spearman coefficient.

reference_frame_total_OA_3.6.0.png The Advanced Object Analyzer.

The Advanced Object Analyzer is a great tool to obtain statistics of individual or all objects with a single button press. With the 3D region of interest (ROI) selector tool you can limit the analysis to a certain volume, but also crop your original data in 3D for further analysis. Objects can be analyzed in different channels and at different time points, and their statistics can be exported as CSV files.

track_analyzer_small.png The Object Tracker.

The Object Tracker is equipped with a wizard for optimized object detection and fast track filtering. The integrated Track Analyzer analyzes object position, speed and flow, and enables the user to visualize and export results in histograms and plots, and as CSV files.

You are welcome to explore these options using a free trial version, or to receive pricing information.

Visualization Options and Tools

SVI has a long experience in visualization next to its strong focus on deconvolution. Several interactive 3D visualization tools are already included in the Huygens Essential and Professional. These tools can be extended with additional visualization options (see bottom page).

Visualization Tools (included in Huygens basics free of charge)

Screen shot Description
Twin Slicer Window The Twin Slicer.

The Twin Slicer allows you to synchronize views of two images, measure distances, plot line profiles, etc. In Basic Mode, image comparison is intuitive and easy, while the Advanced Mode gives the user the freedom to rotate the cutting plane to any arbitrary orientation, link (synchronize) or unlink viewing parameters, and more.

Crosshair3.png The Orthogonal Slicer.

The Orthogonal Slicer is designed to show the same point in 3D space from 3 orthogonal directions, i.e., xy (top left), xz (bottom left), and yz (bottom right). If you move one of the slices, the others will follow to make sure that the center of each of the slices intersects in the same point in space. This behavior makes the Ortho Slicer a useful tool to study small objects in 3D.

SfpRenderer.PNG The SFP Renderer (Basic mode).

The Simulated Fluorescence Process Renderer interprets a 3D microscopy image as a distribution of fluorescent material. The SFP algorithm creates depth cue rich images from unprocessed data, and is eminently suited for rendering 3D microscopic datasets since it does not rely on boundaries or sharp gradients. Without a visualization license, the SFP renderer can be used but not all parameters can adjusted. Furthermore hard iso-surfaces and cutting planes are not availabe.

MIP_Landman.jpg The MIP Renderer.

The Maximum Intensity Projection renderer projects only the voxels with maximum intensity that fall in the way of parallel rays traced from the viewpoint to the plane of projection. This allows you to obtain a direct spatial projection of your 3D microscopy data from the point of view you wish.

Selection_090.png The Gallery Tool.

The Gallery tool shows all individual Z slices or time serie frames in one overview, and allows detailed inspection of the slices with the Detailed Tile viewer.The overview can be customized and saved for e.g. presentation purposes.

Visualization Options (optional in Huygens)

Available starting from 590€ / 780$ ex VAT

Screen shot Description
SfpRenderer.PNG The SFP Renderer (Advanced mode)

The Simulated Fluorescence Process Renderer considers a 3D microscopy image as a distribution of fluorescent material. The SFP algorithm creates depth cue rich images from unprocessed data, and is eminently suited for rendering 3D microscopic datasets since it does not rely on boundaries or sharp gradients. Since the SFP algorithm is based on ray-tracing, it is particularly suited for GPU acceleration. With an advanced visualization license, all parameters can be freely adjusted, and the internal animator can be used. Furthermore, hard iso-surfaces like those found in the surface renderer can be brought into the SFP scene, with fully realistic shadows, taking the rendering to another level. Finally, the whole scene can be manipulated with omni-directional cutting planes, allowing you to freely slice through your virtual object in real time.

Screenshot 3.7.0 The Surface Renderer.

The Surface Renderer renders very large microscopic volume data to high resolution output images using fast Ray Tracing algorithms. Separated volumes are represented continuous surfaces and thus can be clearly distinguished from one another.

MoviemakerOption2.png The Movie Maker.

The Movie Maker is a tool that allows you to easily create sophisticated animations of your multi-channel 3D images using the powerful Huygens Visualization renderers.Movies can be exported as AVI or TIFF images.

You are welcome to explore these options using a free_trial.png version, or to receive pricing information.