Visium
Human prostate gland
INT28
silver Interactive viewer H&E prostate adenocarcinoma No linked publication
print(sdata)
SpatialData object
├── Images
│ └── 'INT28_full_image': DataTree[cyx] (3, 13580, 14528), (3, 6790, 7264), (3, 3395, 3632), (3, 1697, 1816)
├── Shapes
│ └── 'INT28_spots': GeoDataFrame shape: (3990, 2) (2D shapes)
└── Tables
└── 'table': AnnData (3990, 17943)
with coordinate systems:
▸ 'global', with elements:
INT28_full_image (Images), INT28_spots (Shapes) Python · sddb client
from sddb import Catalog
ds = Catalog().dataset("T7r1vLVCoAdNfV7a0000")
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("T7r1vLVCoAdNfV7a") # 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 T7r1vLVCoAdNfV7a0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/T7r1vLVCoAdNfV7a
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid T7r1vLVCoAdNfV7aLicense: CC BY-NC-SA 4.0 (noncommercial)
Metadata
- Technology
- Visium
- Organism
- human
- Tissue
- prostate gland
- Condition
- prostate adenocarcinoma
- Modality
- RNA
- Observations (spots)
- 3,990
- Tier
- silver
- Chemistry
- Visium v1
- Resolution
- 14,528 × 13,580 px
- mpp
- 0.616 µm/px
- Size
- 551 MB
- Sample ID
- INT28
- 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