Tutorials
Here are the tutorials for the datasets used in the COSIE paper. If you have histology images, you can begin with the image feature extraction tutorial to generate image representations, and then proceed with the subsequent tutorials to apply COSIE to your data.
Tutorials
- Tutorial - Image feature extraction
- Tutorial 1 - Periodontal data (Visium HD + CODEX)
- Tutorial 2 - Atherosclerosis (Xenium + CODEX)
- Tutorial 3 - Mouse brain (Spatial MALDI-Visium)
- Tutorial 4 - Mouse hippocampus (Spatial MALDI-Visium)
- Tutorial 5 - Mouse embryo (Spatial Mux-seq)
- Tutorial 6 - Gastric cancer (Visium + COMET)
- Tutorial 7 - Lung cancer (10x Visium Spatial Gene and Protein)
- Tutorial 8 - Mouse spleen (SPOTS)
- Tutorial 9 - LUAD TCGA integration
- Tutorial 10 - B cell lymphoma (CosMx + CODEX)
- Tutorial 11 - Tonsil (10x Visium Spatial Gene and Protein)