I am trying to analyze the shape features of tumor areas using QuPath’s Delaunay tessellation algorithm:
Analyze --> Spatial Analysis --> Delaunay cluster features 2D
This QuPath function works fine on multichannel Zeiss *.czi images with one Z-plane. However, I am not so much interested in the Delaunay measurements as such but more in the shape overlay, i.e., the tessellation object itself (the network of white lines in the picture above).
What QuPath does very nicely and what I just cannot replicate using other software (e.g., R) is limiting the Delaunay triangulation specifically to a specific class of cells (e.g., tumor cells, stroma). This gives complex shapes without “bridges” across the areas where cells of another class reside. This “bridge-free” version of the Delaunay pattern, as generated by QuPath, is what I am looking for.
Is the “graph” of the Delaunay tessellation accessible via scripting? Can it be exported to ImageJ? E.g., as a *.tiff or SVG? I have some (very, very) basic Groovy knowledge and a working IntelliJ installation.
Arnulf Mayer, University Medical Center Mainz