cospar.pp.get_state_info¶
-
cospar.pp.
get_state_info
(adata, n_neighbors=20, resolution=0.5)¶ Update state_info using
scanpy.tl.leiden()
We assume that adata.obsm[‘X_pca’] exists. It first runs KNN graph construction.
- Parameters
- adata :
AnnData
object - n_neighbors : int, optional (default: 20)
Neighber number for constructing the KNN graph, using the UMAP method.
- resolution : float, optional (default: 0.5)
A parameter value controlling the coarseness of the clustering. Higher values lead to more clusters.
- adata :
- Returns
Modify adata.obs[‘state_info’].
If ‘state_info’ existed before, save a copy at adata.obs[‘state_info_old’]