Additional file 1 of Vispro improves imaging analysis for Visium spatial transcriptomics

Additional file 1: Table S1. List of spatial transcriptomics analysis tools. Provides an overview of existing tools, including name, publication year, citation, and usage of histology images. Also indicates tool capabilities across six functions: image processing, full tissue extent handling, fiducial marker detection, image restoration, tissue detection, and disconnected tissue segregation. Table S2. List of Visium data sources. Lists the Visium datasets used for training Vispro, including dataset names, sources, species, tissue types, tissue conditions, number of images, and unique sample IDs. Table S3. Evaluation information. Lists the sample IDs of Visium datasets used for evaluating tissue area identification, cell segmentation, and image registration modules. Table S4. List of CytAssist data sources. Lists the CytAssist datasets used to evaluate the image registration module and demonstrate generalizability, including dataset names, sources, species, tissue types, and number of images. Table S5. List of gene imputation data sources. Includes dataset names, sources, species, tissue types, and number of images used for gene imputation task. Table S6. List of Stereo-seq data sources. Includes dataset sources, species, tissue types, and number of images from Stereo-seq data used to demonstrate generalizability. Table S7. List of Xenium data sources. Includes dataset sources, species, tissue types, and number of images from Xenium data used to demonstrate generalizability.