export_metadata

besca.st.export_metadata(adata, basepath, n_pcs=3, umap=True, tsne=False)[source]

Export metadata in FAIR format for loading into database

wrapper function for analysis_metadata with correct folder structure/names for loading into the database.

Parameters:

  • adata (ÀnnData) – AnnData object that is to be exported

  • basepath (str) – root path to the Analysis folder (i.e. ../analyzed/<ANALYSIS_NAME>)

  • n_pcs (int | default = 3) – number of PCA components to export

  • umap (bool | default = True) – boolian indicator if umap coordinates should be exported

  • tsne (bool | default = False) – boolian indicator if tSNE coordinates should be exported

Returns:

writes to file

Return type:

None