Toolkit/System

Features/Improvements

Base Software

General:

  • Expanded the AI Model Store to allow filtering of models by name.
  • Included Docker Desktop in the ZEISS Microscopy Installer.
  • Improved Smart Setup by adding new dyes from the FPbase.org database.
  • Updated the arivis Pro bridge to allow sending czi images to arivis Pro without a conversion.
  • Removed the arivis Cloud (on-site) functionality.

Direct Processing:

  • Added Lightfield 4D Processing.

Airyscan
  • Expanded Airyscan Joint Deconvolution for support of Airyscan Multiplex.

Bio Applications
  • Changed the designation of the toolkit formerly known as Bio Apps toolkit to Bio Applications.

Celldiscoverer 7
  • Added support of additional multi-well plate formats for reliable sample carrier calibration.

Developer Toolkit
  • Migrated to Iron Python 3.4 which introduces syntax changes that may render existing macros incompatible. To mitigate this, a conversion tool is provided to update scripts for compatibility with ZEN 3.12 and higher. You can convert macros in .py format, e.g. using ZeissPython directly with the 2to3 tool. Scripts in .czmac format can be converted with the ZeissMacroConverter.py and ZeissMacroBatchConverter.py batch conversion script (available at the ZEISS Github page). For more detailed information, see Breaking Changes for Developer Toolkit and Smart Acquisition Toolkit.

FLIM Application
  • Enabled FLIM acquisition for NLO tracks with PicoQuant detectors.

Lightfield 4D
  • Introduced Lightfield 4D to image an entire volume at an exact point in time without any time delay. Instead of capturing single 2D images at different time points, a micro lens array positioned between objective and camera generates 37 individual images and collects all the 3D information at the same instant.

Microscopy Copilot
  • Added Microscopy Copilot, an AI assistant designed as a conversation tool helping LSM users to set up imaging experiments on LSM systems.

Slidescan
  • Created a new version of the macro for custom sample detection. The version number is part of the name and indicated in the macro code as a comment.
  • Introduced a new barcode engine.
  • Added support for Axicam 820 mono with 0.8x adapter for Spatial Biology.
  • Enabled Axicam HDR mode with 16 bit output.

Smart Acquisition Toolkit

Guided Acquisition

  • Implemented the possibility to loop and repeat the entire Guided Acquisition workflow and/or detailed scans allowing dynamic observation of rare events over time.

Experiment Feedback

Spatial Biology
  • Introduced a new toolkit initially only available with the special Spatial Biology configuration of Axioscan 7.
  • Includes Low Contrast AI Tissue Detection, Co-Registration, and FINE functionality.
  • Low Contrast AI Tissue Detection adds a new tissue detection method to the Axioscan 7 workflow which is capable of detecting faint contrast of fluorescent tissue in fast brightfield (flash) prescans, combining speed and robustness.
  • Co-Registration adds a new Tissue Image Alignment image processing function for combining multi-channel images of different staining and imaging cycles.
  • Fluorescence Intensity Normalization and Evaluation (FINE) ensures the same fluorescence intensities across multiple scanners once set up in factory.

ZEN API
  • Introduced ZEN API as a open interface designed to control or systems from external applications.