scvi.data.organize_cite_seq_10x#
- scvi.data.organize_cite_seq_10x(adata, copy=False)[source]#
Organize anndata object loaded from 10x for scvi models.
- Parameters:
- Return type:
- Returns:
If copy is True, returns anndata object organized for input to scvi models
Else, updates the anndata inplace
Examples
>>> adata = scanpy.read_10x_h5(<path_to_10x_h5_file>, gex_only=False) >>> adata AnnData object with n_obs × n_vars = 713 × 33555 var: 'gene_ids', 'feature_types', 'genome' >>> organize_cite_seq_10x(adata) >>> adata AnnData object with n_obs × n_vars = 713 × 33538 var: 'gene_ids', 'feature_types', 'genome' obsm: 'protein_expression'