metalsinglecell.pp.pca

metalsinglecell.pp.pca(adata, n_comps=50, layer=None, use_highly_variable=None, zero_center=True, svd_solver='randomized', random_state=0, copy=False)

PCA (sc.pp.pca); writes obsm['X_pca'], varm['PCs'], uns['pca'].

Sparse input → the sparse-aware randomized PCA (no densify). use_highly_variable restricts to adata.var['highly_variable'] (default True if that column exists).

Parameters:

• n_comps (int)

• use_highly_variable (bool | None)

• zero_center (bool)

• svd_solver (str)

• random_state (int)

• copy (bool)