Training Images for "ImmuNet" Convolutional Neural Network

This dataset contains all annotations and images for training the machine learning architecture presented in this manscript:

Shabaz Sultan, Mark A. J. Gorris, Lieke L. van der Woude, Franka Buytenhuijs, Evgenia Martynova, Sandra van Wilpe, Kiek Verrijp, Carl G. Figdor, I. Jolanda M. de Vries, Johannes Textor:ImmuNet: a segmentation-free machine learning pipeline for immune landscape phenotyping in tumors by multiplex imaging.Biology Methods and Protocols 10(1), bpae094, 2025. doi: 10.1093/biomethods/bpae094

The .tar.gz file contains several multichannel images stored as TIFF files, and arranged in a folder structure that is convenient for matching the files to the annotations provided in the .json.gz file. We also provide an .h5 file that contains the final trained network that was used to generate the figures in this manuscript.

Further information on the data can be found in the manuscript cited above. Instructions on how to use the annotations and the code can be found on our GitHub page at: https://github.com/jtextor/immunet