Visium
Mouse brain
NCBI809
bronze Interactive viewer H&E No linked publication
print(sdata)
SpatialData object
├── Images
│ └── 'NCBI809_full_image': DataTree[cyx] (3, 12599, 11447), (3, 6299, 5723), (3, 3149, 2861), (3, 1574, 1430)
├── Shapes
│ └── 'NCBI809_spots': GeoDataFrame shape: (1554, 2) (2D shapes)
└── Tables
└── 'table': AnnData (1554, 32285)
with coordinate systems:
▸ 'global', with elements:
NCBI809_full_image (Images), NCBI809_spots (Shapes) Load in Python
import lamindb as ln
db = ln.DB("scverse/spatialdata-db")
artifact = db.Artifact.get("VrigkHmBiQnx9RvW") # 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 Load from the CLI
# one-shot: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/VrigkHmBiQnx9RvW
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid VrigkHmBiQnx9RvW Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["VrigkHmBiQnx9RvW0000"])[0]
ds.elements() # inspect without downloading
sdata = ds.load(lazy=False) # copy to the local cache and openPart of collection
Regional differential gene expression analyses of brains from four 24w-old Nf1+- mice→ 4 datasets · other
Metadata
- Technology
- Visium
- Organism
- mouse
- Tissue
- brain
- Modality
- RNA
- Observations
- 1,554
- Tier
- bronze
- Chemistry
- Visium v1
- Resolution
- 11,447 × 12,599 px
- mpp
- 0.759 µm/px
- Size
- 336 MB
- Sample ID
- NCBI809
- License
- CC BY-NC-SA 4.0 NonCommercial
- Published
- Apr 5, 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