Visium
Human prostate gland
INT25
silver Interactive viewer H&E prostate adenocarcinoma No linked publication
print(sdata)
SpatialData object
├── Images
│ └── 'INT25_full_image': DataTree[cyx] (3, 13998, 14315), (3, 6999, 7157), (3, 3499, 3578), (3, 1749, 1789)
├── Shapes
│ └── 'INT25_spots': GeoDataFrame shape: (3808, 2) (2D shapes)
└── Tables
└── 'table': AnnData (3808, 17943)
with coordinate systems:
▸ 'global', with elements:
INT25_full_image (Images), INT25_spots (Shapes) Python · sddb client
from sddb import Catalog
ds = Catalog().dataset("55eNpT0Voz1abBwQ0000")
ds.elements() # inspect without downloading
sdata = ds.to_sdata() # cached locally, reused
print(sdata) Python · lamindb
Needs pip install lamindb and network access to the Lamin database, which is limited during the alpha. If it fails, use the Client tab.
import lamindb as ln
db = ln.DB("scverse/spatialdata-db")
artifact = db.Artifact.get("55eNpT0Voz1abBwQ") # stem uid: Lamin resolves it to the latest version
sdata = artifact.load() # cache, then load into memory
group = artifact.open() # stream without downloading
path = artifact.cache() # sync into the local cache, returns the path Shell
# sddb client: download the .zarr into data/
sddb-cli download 55eNpT0Voz1abBwQ0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/55eNpT0Voz1abBwQ
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid 55eNpT0Voz1abBwQLicense: CC BY-NC-SA 4.0 (noncommercial)
Metadata
- Technology
- Visium
- Organism
- human
- Tissue
- prostate gland
- Condition
- prostate adenocarcinoma
- Modality
- RNA
- Observations (spots)
- 3,808
- Tier
- silver
- Chemistry
- Visium v1
- Resolution
- 14,315 × 13,998 px
- mpp
- 0.616 µm/px
- Size
- 547 MB
- Sample ID
- INT25
- License
- CC BY-NC-SA 4.0 NonCommercial
Cite this dataset
No linked publication found — please cite the data source.
License: CC BY-NC-SA 4.0 ↗ · Reprocessed to SpatialData by SpatialData-DB