Spatial transcriptomics analysis code

This repository contains the code used for the spatial transcriptomics analysis of mouse lung tissue samples included in the study. The analysis was performed on three experimental groups: (1) unvaccinated mice, (2) mice vaccinated with GLA-3M-052-LS + OVA, and (3) mice vaccinated with GLA-3M-052-LS + OVA with CD4/CD8 blocking. The code was used to process raw spatial transcriptomics data, perform quality control, generate spatial expression matrices, and conduct downstream analyses including clustering, differential expression, and spatial domain mapping.