scHopfield.tools.save_jacobians

scHopfield.tools.save_jacobians(adata: AnnData, filename: str, cluster_key: str = 'cell_type', compression: str = 'gzip')[source]

Save Jacobian eigenvalues and eigenvectors to HDF5 file.

Saves eigenvalues and eigenvectors (if computed) to an HDF5 file with compression. Complex arrays are stored as separate real and imaginary parts. Removes temporary eigenvector storage from adata after saving.

Parameters:

  • adata (AnnData) – Annotated data object with computed Jacobian data

  • filename (str) – Path to save HDF5 file

  • cluster_key (str, optional (default: 'cell_type')) – Cluster key to store as metadata attribute

  • compression (str, optional (default: 'gzip')) – HDF5 compression algorithm (‘gzip’, ‘lzf’, etc.)