Visium
Mouse heart
NCBI786
bronze Interactive viewer H&E No linked publication
print(sdata)
SpatialData object
├── Images
│ └── 'NCBI786_full_image': DataTree[cyx] (3, 13305, 13224), (3, 6652, 6612), (3, 3326, 3306), (3, 1663, 1653)
├── Shapes
│ └── 'NCBI786_spots': GeoDataFrame shape: (2826, 2) (2D shapes)
└── Tables
└── 'table': AnnData (2826, 31899)
with coordinate systems:
▸ 'global', with elements:
NCBI786_full_image (Images), NCBI786_spots (Shapes) Python · sddb client
from sddb import Catalog
ds = Catalog().dataset("AHZjhfHIT5xRGS4S0000")
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("AHZjhfHIT5xRGS4S") # 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 AHZjhfHIT5xRGS4S0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/AHZjhfHIT5xRGS4S
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid AHZjhfHIT5xRGS4SLicense: CC BY-NC-SA 4.0 (noncommercial)
Part of collection
YAP Drives Assembly of a Spatially Colocalized Cellular Triad Required for Heart Renewal→ 2 datasets · comparison
Metadata
- Technology
- Visium
- Organism
- mouse
- Tissue
- heart
- Modality
- RNA
- Observations (spots)
- 2,826
- Tier
- bronze
- Chemistry
- Visium v1
- Resolution
- 13,224 × 13,305 px
- mpp
- 0.647 µm/px
- Size
- 496 MB
- Sample ID
- NCBI786
- License
- CC BY-NC-SA 4.0 NonCommercial
- Published
- Jan 11, 2024
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