New & Noteworthy

  • AI-assisted Spine Tracing: automated spine detection using pre-trained Al models or other methods.
  • Enhanced Cell Measurements: expanded measurement capabilities enabling richer feature sets.
  • Native CZI Support: open, visualize and analyze CZI data, with no intermediate conversion steps needed.
  • Remote Docker: run instance segmentation with the help of a satellite / remote Linux system.

Deep Learning / Machine Learning

  • new: DL Trainer preview - verify the trained model right in the DL trainer panel
  • new: tile blending option for DL reconstruction operation
  • new: option to specify the normalization range to be applied on the data before inference
  • new: confidence feature value for instance segmentation results
  • new: option to run instance segmentation with the help of a remote Docker engine
  • new: arivis Cloud preference page
  • new: option to adjust normalization range for Cellpose operation
  • improved: improved consistency for CUDA based calculations (e.g. Cellpose)
  • improved: better help and guidance for running instance segmentation based on ZEISS arivis Cloud models
  • improved: AI model store sorts list by creation time now
  • improved: AI models store displays the model's author
  • improved: do not show and store arivis Cloud access token in clear text anymore
  • improved: order of classes in the DL trainer is reversed (the same as in arivis Cloud now)
  • fix: prevent "Could not reach the instance segmentation service" for some specific Docker setups
  • fix: ML Segmenter - under some conditions, segments were not found on the last plane
  • removed: sync with channel visibility in ML Trainer

Tracing

  • new: Spine Tracer operation to detect spines and extend existing traces
  • new: AI assisted spine detection in the Spine Tracer operation
  • new: spine counting and spine density object features
  • new: SWC export respects selection
  • fix: Neuron Tracer - make sure all neurites are connected to a cell body (if configured)

Analysis & Objects

  • new: SD (standard deviation) added for a lot of features
  • new: morphological segment features (convex hull, cross section area, equivalent ellipse projection, maximum inscribed sphere, inscribed disk)
  • new: additional 2D segment features (symmetry 2D, Feret projection, convex hull projection)
  • improved: Seeded Region Growing supports more and larger seeds
  • improved: object styles parent filter allows to select trace type
  • improved: updated ITK version (fixes cancellation issues)
  • improved: progress in the Store Objects operation during surface pre-calculation
  • improved: error handling in the Import Surfaces dialog
  • improved: group statistics for traces
  • improved: more detailed descriptions for object feature calculations in the help

4D-Viewer

  • new: arivis Pro tries to active high performance graphics automatically
  • improved: optimized progressive strategy for object visualization
  • improved: surface calculation creates smoother objects with less terracing artefacts
  • improved: selection of objects behind an active clipping plane
  • improved: unified memory limit warnings for traces and segments
  • improved: performance for the track tool in 4D
  • fix: avoid block artefacts for storyboard movies with time series data

Data Handling & Import

  • new: open CZI data natively without the need for import
  • new: Thermo Fisher CellInsight CX7 media handler
  • improved: background correction performance for large data
  • improved: Meta Image Series / ImageXpress import
  • improved: support for JPEG2000 compressed TIFF data
  • fix: image set names for well plate datasets (e.g. from ImageXpress or Yokogawa)
  • fix: potential import problems for 32bit float TIFF data
  • fix: problems importing multimodal Yokogawa data
  • fix: some VSI were imported with a wrong channel order
  • fix: potential problems with export objects as labelled images
  • fix: import *.am data from Avizio
  • fix: import of stitched LaVision datasets

General

  • new: unified Pan tool (previously Drag tool in 2D)
  • new: allow panning in 2D and 4D Viewer (independent of the active tool) by middle mouse drag
  • fix: prevent selection of non editable objects in the Draw Tool (e.g. track or trace)
  • removed: deprecated Python script API functions ImageSet.get_pixel and ImageSet.set_pixel
  • switched to .Net 8 * numerous additional bug fixes and stability improvements