dynamo.pp.top_pca_genes
- dynamo.pp.top_pca_genes(adata, pc_key='PCs', n_top_genes=100, pc_components=None, adata_store_key='top_pca_genes')[source]
Define top genes as any gene that is
n_top_genes
in some principle component.- Parameters:
adata (
AnnData
) – an AnnData object.pc_key (
str
) – component key stored in adata.uns. Defaults to “PCs”.n_top_genes (
int
) – number of top genes as valid top genes in each component. Defaults to 100.pc_components (
Optional
[int
]) – number of top principle components to use. Defaults to None.adata_store_key (
str
) – the key for storing pca genes. Defaults to “top_pca_genes”.
- Raises:
Exception – invalid pc_key.
- Return type:
- Returns:
The AnnData object with top genes stored as values of adata.var[adata_store_key].