ZEN SOFTWARE TOOLKITS

2D Toolkit

Basic Image Analysis in Life Science Research

Analyze samples precisely using the 2D Toolkit. A user-friendly wizard assists setup, granting you with the full process control for efficient and easy task completion.

Professional Image Analysis with Minimum of Expert Knowledge
Flexibility to Fine-Tune Classes, Parameters, and Features
Choice of Conventional and AI-Based Segmentation Algorithms
Neat and Interactive Analysis Results

Professional Image Analysis with Minimum of Expert Knowledge

Good Guidance Guarantees Good Results

Image analysis can be complex, but it doesn't need to be difficult. The Image Analysis Wizard guides you through the analysis setup step-by-step. You can define your classes-of-interest, choose a segmentation method and the features to extract, all within a matter of minutes. After having created the analysis script, you can run the analysis and move on, or re-use on other data sets to generate reproducible results.

Flexibility to Fine-Tune Classes, Parameters, and Features

Every Analysis Presents Unique Challenges

Optimal image analysis requires some fine-tuning and depends on image quality, sample complexity or the scientific questions asked. The Image Analysis Wizard allows you to set up multiple, potentially nested classes, pre-process low-quality images, choose from a variety of segmentation methods, choose from large variety of measurement features (for data extraction) or even configure your own measurements.

Choice of Conventional and AI-based Segmentation Algorithms

Extend Your Possibilities

At the heart of an image analysis stands segmentation: The art of precisely identifying objects of interest based on their visual properties. To cover all possible variations and complications, the Image Analysis Wizard is equipped with several options like Intensity-threshold, variance-based or dynamic segmentation. Likewise, the wizard is compatible with Intellesis Machine-learning and Deep Learning segmentation models imported for example from arivis Cloud.

Neat and Interactive Results Display

Actionable Results for Your Research

Upon analysis completion, you'll be presented with visual overlays, a configurable plot, and exportable data tables. Statistics will be provided both on a sample level and on the level of single objects. The plot function allows displaying any feature in histograms, scatter plots or as heat-maps, which comes especially handy for well plate screens. All data is linked with each other, so you can interactively explore any experimental observations.

A Deeper Look into the Image Analysis Wizard

Flexible Class Definition The wizard enables defining multiple object classes. Also, complex nested class hierarchies ("objects within objects") can be modelled effortlessly.

Pre- and Post-Processing IA Wizard enables pre-processing images before segmentation (image smoothing, sharpening, and background subtraction). Edit segmentation results with morphological filters or object-splitting operations.

Flexible Object Filtering Refine segmentation results further by filtering. The wizard enables filtering by any combination of object features and provides preview of selected and dismissed objects.

Features and Annotation The wizard enables selecting precisely the object features suitable and necessary for analysis and allows customizing annotations displayed in the result.

Custom Features Define custom features in the IA wizard to calculate a combination of two or more basic features (e.g., ratios, products…). Includes single-object and ensemble statistics.
Segment Binary Images Use this segmenter to transform imported binary image masks (e.g. from external analysis) into ZEN objects for analysis. Object size filtering and object splitting are also enabled.

Zones Of Influence (ZOI) ZOI is a special segmentation method that enables analysing an object's surroundings. This allows analysis of certain cellular regions, e.g. for nuclear translocation of cellular signalling molecules.

Machine Learning Segmenter The Image Analysis Wizard integrates Machine Learning segmentation, available in the AI Toolkit. The powerful ML algorithms can solve segmentation problems where conventional algorithms are failing.

Deep Learning Segmenter Deep Learning-based semantic or instance segmentation are arguably the most powerful methods to date. The wizard is compatible with models trained on arivis Cloud or third-party tools.

3D Segmentation In combination with the 3D Toolkit, the wizard generates 3D objects from intensity-based threshold segmentation. On top, 3D segmentation is compatible with AI-based models from the AI Toolkit and arivis Cloud.

Processing Functions

Little Helpers for Every Situation

The toolkit features over 170 single image processing functions, covering standard geometric, morphological, image smoothing & sharpening or binary operations, but also the higher-level functions like segmentations or Intellesis functionality. Almost all are compatible with macro programming while over 30 are batch-compatible for automation.