# muDM Spatial Dataset Catalog

> Machine-readable catalog of publicly hosted 2D/3D spatial datasets served as tile pyramids on S3/CloudFront. Coordinates are image-pixel [X,Y,Z] in micrometres, NOT lon/lat. features.parquet is muDM binary tile geometry (NOT GeoParquet), served directly over HTTP (range-readable) and queryable with DuckDB-over-HTTP.

## Catalog (start here)
- [pyramids.json](https://ngrf.mudm.io/pyramids.json): the unified muDM 2D+3D catalog (PyramidJSON) — enumerates every dataset with open facet metadata; follow rel=item links to each dataset's tilejson.json descriptor. Also a crawlable OGC API-Records catalog.
- [catalog.parquet](https://ngrf.mudm.io/catalog.parquet): one row per dataset; DuckDB-queryable over HTTP (filter by organism/technique/bbox without a server).
- [access guide](https://ngrf.mudm.io/access.html): tile URL templates, muDM Parquet schema, DuckDB/Leaflet/Python snippets, the image-pixel coordinate caveat.

## Featured datasets
- [BANC — Drosophila central nervous system connectome (~135k neurons)](https://ngrf.mudm.io/datasets/banc.html): The complete BANC connectome — ~135,000 neurons spanning the whole adult FEMALE Drosophila central nervous system (brain + ventral nerve cord) in one specimen. (descriptor: https://ngrf.mudm.io/datasets/banc/tilejson.json)
- [FlyWire — Drosophila brain connectome (~139k neurons)](https://ngrf.mudm.io/datasets/flywire.html): The complete FlyWire connectome of an adult female fruit-fly brain — ~139,000 reconstructed neurons across every super class, from the FAFB serial-section EM volume. (descriptor: https://ngrf.mudm.io/datasets/flywire/tilejson.json)
- [Hemibrain — Drosophila central brain connectome (~25k neurons)](https://ngrf.mudm.io/datasets/hemibrain.html): Dense FIB-SEM reconstruction of 25,000 neurons from the Janelia FlyEM Hemibrain connectome of the adult female Drosophila central brain. (descriptor: https://ngrf.mudm.io/datasets/hemibrain/tilejson.json)
- [HRA — Human male body (3D reference anatomy)](https://ngrf.mudm.io/datasets/hra-male.html): 761 anatomical structures of the male body, assembled in the HRA Common Coordinate Framework. (descriptor: https://ngrf.mudm.io/datasets/hra-male/tilejson.json)
- [MaleCNS — Drosophila central nervous system connectome (~177k neurons)](https://ngrf.mudm.io/datasets/malecns.html): The complete MaleCNS connectome — ~176,570 neurons spanning the entire adult MALE Drosophila central nervous system (brain + optic lobes + VNC) in one specimen. (descriptor: https://ngrf.mudm.io/datasets/malecns/tilejson.json)
- [Xenium — Human Brain Glioblastoma (GBM, FFPE, custom add-on)](https://ngrf.mudm.io/datasets/xenium-brain-gbm.html): FFPE human brain glioblastoma section profiled by 10x Genomics Xenium In Situ spatial transcriptomics. (descriptor: https://ngrf.mudm.io/datasets/xenium-brain-gbm/tilejson.json)
- [Xenium — Human Breast Invasive Ductal Carcinoma (IDC, FFPE, full slide)](https://ngrf.mudm.io/datasets/xenium-breast-full.html): 10x Xenium spatial transcriptomics of FFPE human breast cancer (Janesick et al. 2023) — full whole-slide section. (descriptor: https://ngrf.mudm.io/datasets/xenium-breast-full/tilejson.json)
- [Xenium Protein — Human Kidney Cancer (FFPE, Multi-Tissue & Cancer panel)](https://ngrf.mudm.io/datasets/xenium-kidney.html): 10x Xenium In Situ (transcriptomics + protein) of FFPE human kidney (renal cell carcinoma). (descriptor: https://ngrf.mudm.io/datasets/xenium-kidney/tilejson.json)
- [Xenium — Mouse Brain (TgCRND8 Alzheimer's model, FFPE, custom add-on, coronal, 17.9 months)](https://ngrf.mudm.io/datasets/xenium-mouse-ad-tgcrnd8-17-9mo.html): TgCRND8 Alzheimer's amyloidosis mouse brain at 17.9 months, FFPE, profiled by Xenium with the Mouse Brain panel plus an Alzheimer's add-on. (descriptor: https://ngrf.mudm.io/datasets/xenium-mouse-ad-tgcrnd8-17-9mo/tilejson.json)
- [Xenium — Mouse Brain (non-diseased, fresh-frozen, coronal)](https://ngrf.mudm.io/datasets/xenium-mouse-brain-coronal.html): 10x Xenium spatial transcriptomics of a fresh-frozen adult mouse brain coronal section (248-gene panel). (descriptor: https://ngrf.mudm.io/datasets/xenium-mouse-brain-coronal/tilejson.json)
- [Xenium — Human Tonsil (reactive follicular hyperplasia, FFPE, Multi-Tissue & Cancer panel)](https://ngrf.mudm.io/datasets/xenium-tonsil-reactive.html): FFPE human tonsil section with reactive follicular hyperplasia, profiled by 10x Genomics Xenium in-situ spatial transcriptomics. (descriptor: https://ngrf.mudm.io/datasets/xenium-tonsil-reactive/tilejson.json)

## License & citation
- Each dataset declares its own `license` (catalog entry) and `citeAs` (croissant.json).