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  • Image analysis protocol packages (APPs) were developed in order to automatically 1) Define intratumoral and peritumoral regions of interest (Supplementary Fig. 7b), 2) Calculate fractions of immune cell subsets based on co-localization of selected markers (Supplementary Fig. 7c), 3) Calculate H-score [1 × (% cells low intensity) + 2 × (% cells moderate intensity) + 3 × (% cells high intensity)] for MHC-expression on carcinoma cells.
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