compute_embeddings
Compute PCA and UMAP embeddings, clustering, and neighbor graphs for spatial transcriptomics data.
Instructions
Compute dimensionality reduction (PCA, UMAP), clustering, and neighbor graphs.
Args:
data_id: Dataset ID
params: Embedding parameters (PCA, UMAP, clustering, etc.)
Input Schema
| Name | Required | Description | Default |
|---|---|---|---|
| params | No | ||
| data_id | Yes |
Output Schema
| Name | Required | Description | Default |
|---|---|---|---|
| data_id | Yes | ||
| skipped | Yes | ||
| computed | Yes | ||
| warnings | No | Non-fatal conditions that may affect result interpretation. | |
| n_clusters | No | ||
| pca_variance_ratio | No |