Software for 3D visualization and analysis of voluminous image data

Software for image data processing

In October 2019, we helped to expand the software facilities of the Imaging Methods Service Laboratory at BIOCEV by supplying a floating license of Imaris software for cell biology, which enables comprehensive analysis and 3D/4D reconstruction of image data obtained mainly from fluorescence microscopes.

The license is run on a dedicated, high-performance workstation, whose parameters allow working with large datasets (>50 GB).

The Imaris license for cell biology provides advanced tools and features for cell segmentation, study of intracellular relationships, automated particle tracking, detection and creation of interactive lineage diagrams in which cell development can be observed from a single original cell to the final stages of cell division, and much more.

Device parameters

A full license of Imaris for Cell Biologists software includes the following modules:

• Imaris Core - a basic module for automatic reading of the configuration of the system (metadata) on which the data was acquired, allowing manipulation of large volumes of data (up to 1 TB), their 3D reconstruction and subsequent display. Thanks to the Imaris Core module, more than 35 different formats can be converted and processed microscopic data - the ability to convert most formats to the special format supported in Imaris (*.ims) is provided by the stand-alone Imaris File Converter application included in every Imaris license
• Imaris MeasurementPro - module for measuring quantitative parameters such as distance or angles between segmented 3D objects
• Imaris Cell - a module providing segmentation of cell volume, nucleus and vesicles, suitable for studying intracellular relationships, measuring mechanical and structural cellular functions
• Imaris TrackLineage - module for analysis of object motion, i.e. for cell tracking. This module is a great tool for processing time-lapse images captured during live cell imaging
• Imaris Vantage - a graphing module for interactive interpretation of results and comparison of optional statistics
• Imaris Coloc - module for colocalization analysis, where the degree of colocalization is determined by Pearson correlation coefficient or Manders coefficient
• Imaris XT - module for extending the image analysis capabilities and integrating new algorithms into Imaris software, common programming languages supported are MATLAB, Python and Java