├── .gitignore ├── LICENSE ├── README.md ├── codex ├── download.py └── to_zarr.py ├── converters └── giotto │ └── cosmx_nsclc.R ├── cosmx_io ├── README.md ├── requirements.txt └── to_zarr.py ├── curio_io ├── Readme └── to_zarr.py ├── examples ├── dataset_for_aggregation.py ├── geojson_conversion.py ├── image_tiles.py ├── rasterize_bins.py ├── slides_euroscipy.py ├── spatial_query_and_rasterization.py └── stiching_experiment.py ├── graphics └── overview.png ├── iss_io ├── Readme └── to_zarr.py ├── macsima_io ├── Readme.md └── to_zarr.py ├── mcmicro_exemplar_io ├── Readme.md ├── exemplar_001_to_zarr.py └── exemplar_002_to_zarr.py ├── mcmicro_io ├── README.md └── to_zarr.py ├── merfish ├── README.md ├── download.py ├── requirements.txt └── to_zarr.py ├── mibitof ├── README.md ├── download.py ├── requirements.txt └── to_zarr.py ├── mouse_liver ├── Readme.txt ├── download.py └── to_zarr.py ├── notebooks ├── czi_demo │ ├── .gitignore │ ├── Readme.md │ ├── on_disk_representation.ipynb │ └── xenium_visium.ipynb ├── dense_net_test.ipynb └── spatialdata_fusion.ipynb ├── pseudocode.py ├── pytest.ini ├── seqfish_io ├── README.md ├── draft_new_format.py └── to_zarr.py ├── seqfish_v2_io ├── Readme.md ├── demo.py └── to_zarr.py ├── spacem_helanih3t3 ├── README.md ├── download.py └── to_zarr.py ├── spacem_scseahorse1 ├── README.md ├── download.py └── to_zarr.py ├── ssam_osmfish ├── Readme.txt ├── download.py ├── to_zarr.py └── to_zarr_with_plots.ipynb ├── steinbock_io ├── __init__.py ├── download.py └── to_zarr.py ├── stereoseq_io ├── README.md └── to_zarr.py ├── tests ├── __init__.py ├── test_napari.py ├── test_to_zarr.py ├── test_to_zarr_visium.py ├── test_to_zarr_visium_hd.py └── test_to_zarr_xenium.py ├── toy └── to_zarr.py ├── utils.py ├── visium ├── README.md ├── download.py └── to_zarr.py ├── visium_1.0.0_io ├── download.py └── to_zarr.py ├── visium_1.1.0_io ├── download.py └── to_zarr.py ├── visium_1.2.0_io ├── download.py └── to_zarr.py ├── visium_1.3.0_io ├── download.py └── to_zarr.py ├── visium_1.3.1_io ├── download.py └── to_zarr.py ├── visium_2.0.0_1_io ├── download.py └── to_zarr.py ├── visium_2.0.0_2_io ├── download.py └── to_zarr.py ├── visium_2.0.1_io ├── download.py └── to_zarr.py ├── visium_2.1.0_1_io ├── download.py └── to_zarr.py ├── visium_2.1.0_2_io ├── download.py └── to_zarr.py ├── visium_2.1.0_3_io ├── Readme └── to_zarr.py ├── visium_associated_xenium_io ├── download.py └── to_zarr.py ├── visium_hd_3.0.0_crc2 ├── download.py └── to_zarr.py ├── visium_hd_3.0.0_io ├── download.py ├── parse_10x_clusters.py └── to_zarr.py ├── visium_hd_3.1.1_io ├── download.py ├── napari_viz.py ├── rasterize_bins_labels.py └── to_zarr.py ├── visium_hd_4.0.1_io ├── download.py └── to_zarr.py ├── vizgen_merscope ├── README.md ├── align.py ├── download.py └── to_zarr.py ├── xenium_1.0.2_io ├── download.py └── to_zarr.py ├── xenium_1.3.0_io ├── download.py └── to_zarr.py ├── xenium_1.4.0_io ├── download.py └── to_zarr.py ├── xenium_1.5.0_io ├── download.py 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