Spatial Transcriptomics Quantification

The Spatial Transcriptomics Quantification pipeline (STQ) enables deconvolution of mouse and human reads, alignment of imaging and spatial gene expression, and extraction of quantitative morphology and imaging features for 10x Genomics Visium spatial transcriptomics data together with matching H&E whole-slide images, facilitating integrated analysis of spatial gene expression and histology. Its utility in integrating transcriptomic and image-derived features support multimodal characterization of tumor microenvironments.