modal_integration

modal_integration

Compare our scMultiNODE model with baselines on four single-cell datasets.

The preprocessed data can be downloaded from here. You can put preprocessed data in the data directory, otherwise, you should specify the data file path in ./Modal_Integration_scMultiNODE.py.

We provide precomputed integration and evaluation metrics of each model for all datasets (modal_integration.zip). You can put download them and put them in the modal_integration/res directory.

We will update the baseline model scripts shortly.

Model running

• ./Modal_Integration_scMultiNODE.py: Run scMultiNODE model on four datasets (HC, HO, DR, and MN)
• ./Compare_Modal_Alignment_Metric.py: Compute evaluation metrics of each model and make comparison.
• ./Compare_Modal_Integration_UMAP.py: Visualize integration of each model and make comparison.
• ./Paper_Metric_Plotting.py: Figures plotting for the paper (Fig. 3).