Fig. 1: The proposed QuST platform.
From: Integrative whole slide image and spatial transcriptomics analysis with QuST and QuPath
a Users begin by importing ST data into QuPath using QuST. This step may require additional spatial alignment data which can be generated via FIJI (see Fig. 2), if the user is working on Xenium dataset (see text). b Once the ST data is successfully loaded, users can perform analysis and visualization via QuPath and QuST. c Given the biological evidence provided by ST, users can generate the training set for image based cell classification and region segmentation based on H&E. Finally, the result generated using the DL module can be further analyzed using the functions described in b.
