Fig. 3: Performance on the mouse brain tissue dataset.

a H& E image of the anterior slice of mouse brain tissue dataset, manual annotation from Long et al.¹⁰ and clustering results of HAST and baseline methods on this slice measured by ARI and FMI. Colors are independently assigned for each method. b H& E image of the posterior slice of mouse brain tissue dataset, annotations from the Allen reference atlas²⁷, and clustering results of HAST and baseline methods on this slice measured by SC and DB. Colors are independently assigned for each method. c Horizontal integration of HAST, including annotations of the Allen reference atlas, results of the integration of HAST and baseline methods on anterior and posterior mouse brain tissue sections. The cerebral cortex is outlined in the red box, and the hippocampal Cornu Ammonis region is outlined in the yellow box. The remaining results of the baseline method are shown in Supplementary Fig. S13. d The UMAP visualization of HAST.