COSIE.data_preprocessing

Functions

clr_normalize_each_cell	Normalize each cell's protein counts using Centered Log-Ratio (CLR) normalization, following the approach used in Seurat and SpatialGLUE.
construct_metacell_data_dict	Apply metacell construction to all available AnnData objects in a multimodal dataset dictionary.
load_data	Process input spatial multi-modal data, returning processed feature matrices and spatial coordinates.
metacell_construction_optimized	Construct metacells by aggregating every 2×2 spatially adjacent grid of cells into one, using integer grid grouping for O(n) performance.
preprocess_adata	Preprocess an AnnData object based on the specified modality.
reconstruct_metacell_to_original	Expand metacell-level embeddings back to individual cells based on the metacell-to-original cell mapping.