This repo adds some support for nonlinear deformation and registration in QuPath, by using the ImgLib2 library.
https://imagej.net/plugins/bdv/warpy/warpy
Download the latest qupath-extension-warpy-[version].zip
file from releases. Unzip it, then and drag its contained files onto the main QuPath window.
If you haven't installed any extensions before, you'll be prompted to select a QuPath user directory. The extension will then be copied to a location inside that directory.
You might then need to restart QuPath (but not your computer).
https://doi.org/10.3389/fcomp.2021.780026
You can build the QuPath Warpy extension from source with
gradlew clean build
The output will be under build/libs
.
clean
removes anything oldbuild
builds the QuPath extension as a .jar file and adds it tolibs