arivis Scientific Image Analysis

Dynamics and Tracking

Contact us

Tracking and Lineage

Tracking cells or subcellular particles in microscopic data can be challenging. The Tracking Module allows analysis of the movement of small (i.e. particle tracking) or large objects (e.g. nuclei, cells, organisms) over time in both 2D or 3D multichannel image sets of any size (100s of GBs or TBs). With ZEISS arivis Pro (formerly Vision4D) we offer an easy to use approach with full control and interactivity at all steps.

The novel software architecture and algorithms delivers top performance on tracking analysis of complex biological data. Combined with our Machine Learning segmentation, tracking and lineage analysis of multidimensional data sets will become an easy task, without the need to be an expert in image analysis. ZEISS arivis Pro (formerly Vision4D) allows you to create expert results and meaningful output data for any kind of tracking or lineage data sets. A manual track tool creates a track or branch interactively in the viewer by placing spots (using markers or Magic Wand). Use arivis Virtual Reality software to proofread and correct your automatically created results much more efficiently than ever before.

Talk with an Expert

arivis Tracking


Fast and Reproducible Tracking


Several parameters and state-of-the-art algorithms allow fast and reproducible tracking which can be applied also on other data sets:

  • Select for center of mass based on intensity or geometry
  • Max distance, including automatic detection of max distance
  • Motion types: Brownian motion, linear regression and conal angle
  • Options to allow divisions and/or fusions
  • Adjustable weighting with one or more other object features, such as intensity, shape or volume

Track Measurements Including Typical Lineage Features

Several (color-coded) measurements within the resulting tracks including typical Lineage features, for example:                                                                                                                                      

  • Instantaneous, average speed and accelaration
  • Velocity
  • Displacement by time point and overall
  • Number of generations, divisions, successors, branches
  • Generation time
  • Time since last division
  • Further custom measurements may be created easily
  • Color-coded display of any object measurements along a track
  • Gating in scatter plots with interactive viewing in 4D (or vice versa)
  • Adjustable dragon tail (tail & head) and vector display for all or some time points
  • Proof reading, corrections or manual tracking is even more efficient and easy using our Virtual Reality Tracking package
  • Easy proof editing with the new Track Editor suggesting the closest objects to a given track in 2D or 3

Cell Tracks of a developing fly embryo

average- track speed0 to 15 um s_3Tracks of cells in a developing fly embryo color-coded by average track speed.
Image courtesy of Celia Smits, Stanislav Y. Shvartsman, Department of Molecular Biology, Princeton University acquired with Luxendo MuVi SPIM

The arivis Image Analysis Platform

The arivis Scientific Image Analysis Platform is a flexible computing universe that scales, parallelizes, and streamlines all imaging workflows. With arivis' easy sharing functions your organization can enjoy data proficiency and efficiency at new levels. arivis includes integrated toolsets that handle everything, from file storage format to project and user-specific computations, to reporting. The platform's hubs connect datasets and manage central imaging databases and raw data exposure, while also enabling Machine Learning and AI routines.

placeholder40px ZEISS arivis Hub A nucleus of computational activity and collaboration at scale. ZEISS arivis Hub enables design and execution of large-scale experiments that produce results from images, whether datasets are already stored or are actively being produced. Mass quantities of microscopy data are onboarded and processed by a virtual team of computational workers. Smartly utilize processing cores in servers or workstations with maximum possible speed.  
placeholder40px ZEISS arivis Pro

Extract results from your scientific images with ZEISS arivis Pro. Make the most of hardware power adjustments and smooth interactivity on microscopy datasets of virtually unlimited size. The software unites multiple tools for visualization and advanced analysis into one easy-to-learn user environment for high productivity. Extend your possibilities with the Python coding feature and a multitude of supported libraries and APIs. Optional Virtual Reality interface.

placeholder40px ZEISS arivis Cloud Train Deep Learning models to automate your image analysis in ZEISS arivis Cloud (formerly APEER). Whether you use standard pipelines for routine tasks or create your own application, you can power your research with AI with just a few clicks. You can train your own model or alternatively, select a pre-defined pipeline and use a previously trained model on your images. The AI-trained models can be used with other ZEISS software products. Read More

Our Team is Happy to Help You

Use the form below to get in contact with our arivis experts. Please describe your query and our team will contact you.