Huygens Object Analyzer Basic
Object analysis for SMLM data with the Huygens Localizer
The basic version of the Object Analyzer is available for use within the Huygens Localizer, the Huygens software package that is specifically designed for analyzing single molecule localization data.
With the Object Analyzer Basic, you can obtain statistics of individual objects or of all objects within a single channel image by pressing just one button. Within the Object Analyzer Basic, objects are segmented by an effective seed-threshold level, and connection technique. A second method that can be applied is the watershed method which increases the reliability of the segmentation even further. To remove too small objects in an early stage from the analysis, a garbage level can be set below which objects are discarded. After that, detected objects are automatically labeled and sent to a continuous Iso Surface Ray Tracing renderer.
With the Object Analyzer Basic, you can obtain statistics of individual objects or of all objects within a single channel image by pressing just one button. Within the Object Analyzer Basic, objects are segmented by an effective seed-threshold level, and connection technique. A second method that can be applied is the watershed method which increases the reliability of the segmentation even further. To remove too small objects in an early stage from the analysis, a garbage level can be set below which objects are discarded. After that, detected objects are automatically labeled and sent to a continuous Iso Surface Ray Tracing renderer.
The segmented and labeled image is shown as a colored iso-surface image. Each object is assigned a different color. Because the iso-surface renderer can recompute a new iso surface rapidly, the threshold can be changed interactively. By clicking on an object the user can read off the local statistics.
The following statistics are reported for each object, depending on the selected Experimental Preset:
- Number and geometry of objects
- Spatial location
- Relation with neighbors
- Relation with reference objects
Main features
- Obtain both visual and quantitative information on all kinds of object analysis questions.
- Automatically segment your data, or use custom settings for the segmentation.
- Render a full analysis of your whole 3D/multi-channel image with a single mouse-click.
- Count (intra)-nuclei or (intra)-cellular objects.
- Perform Object Colocalization.
- Measure intensities, distances, mass, diameter and more.
- Intuitively select Anchors (reference objects) and Region Of Interest (ROI).
- Measure nearness between objects in the same or in a different channel.
- Refine your analysis with versatile object filter options.
- Export your object statistics in all main spreadsheet formats.
How to use it
For a step-by-step explanation, we like to refer you to the:- Chapter Object Analyzer Basic in the Localizer manual.
- Object Analyzer Tutorial
- Object Analyzer Expert Tutorial
- Module components reference: Object Analyzer Reference