To do list:
Profiling
- scRNA-seq annotation
- show known marker expression in each cluster
- Spatial intergration + clsutering
- Spatial Deconvolution
- Correlation between deconvolution weight and celltype fraction
Hypoxic
- scRNA-seq hypoxic Macrophage: deg, enrichment
- Spatial hypoxic region seg
- DEGs and enrichment between hypoxic region and normal region in seg region
- CCC for hypoxic tumor and all macrophage in seg region
- Macrophage trajectory (velocity) in seg region
Blood vessel
- Clustering define blood vessel
- immu cell decon weight in & out blood vessel
- blood vessel B/T deg & enrichment
- scRNA-seq exhausted score for immu cell in blood vessel
- statistic test for Pathway score of in & outr blood vessel T/DC