8. Label transfer with supBIOT

Workflows for supervised label transfer across modalities using supBIOT.

• a. Supervised scBIOT (supBIOT)
• b. label transfer from scRNA-seq to Xenium
• Load Xenium spatial data
• Preprocess
• Load scRNA-seq reference
• Subset for a quick speed test
• Preprocess
• Build the reference UMAP
• Concatenate adata
• PCA
• Integrate disjoint datasets with label transfer (reference scRNA-seq –> Xenium)
• Evaluate
• Visualize
• Visualize (markers)
• Evaluate (DE)
• Visualize (correlation)
• c. Supervised Panc8 benchmarking