multiscale_analysis

reproducing data analysis for MEISTER

File descriptions

• MEISTER_eval.ipynb: Evaluation of MEISTER models on experimental MSI data sets.
• MEISTER_simulation.ipynb: Evaluation of MEISTER models on simulated MSI data sets.
• MEISTER_singlecell.ipynb: Evaluation of MEISTER models on experimental single-cell MS data sets.
• coronal3D.ipynb: Post processing of the reconstructed 3D coronal data.
• embed3D.ipynb and embed_3DCoronal: Parametric UMAP to obtain coherent feature images for sagittal and coronal data sets.
• regmri_atlas_coronal.ipynb: Brain regional analysis of registered 3D coronal data with MRI atlas.
• tissue_sc_mapping_deepmsi.ipynb: Integrative analysis of 3D MSI data with 13K single-cell MS data from five brain regions.
• tissue_sc_mapping_deepmsi_hip.ipynb: Integrative analysis of hippocampus MSI data with single-cell MS on hippocampal cells.