EnrichMap: Spatially-aware gene set enrichment

Notebooks for reproducing the results of the EnrichMap preprint.

1. Simulated dataset

• Figure 1 & Supplementary Figure 1
• Supplementary Figure 1e-f

2. Visium mouse brain dataset

• Figure 2
• Supplementary Figure 2
• Figure 3 and here
• Supplementary Figure 3 and here
• Supplementary Figure 4

3. Visium human breast cancer dataset

• Figure 4 & Supplementary Figure 4 and here

1. Other platforms Figure 5:

• Visium HD
• Xenium
• MERFISH
• Imaging Mass Cytometry

For more details of the EnrichMap package and learn how to use EnrichMap package please go to documentation at https://enrichmap.readthedocs.io/en/stable.