Visium
Human brain
GSM8513879
bronze Interactive viewer H&E brain glioma Provisional
print(sdata)
SpatialData object
├── Images
│ └── 'GSM8513879_SPA7_D_hires_image': DataArray[cyx] (3, 1968, 2000)
├── Shapes
│ └── 'GSM8513879_SPA7_D': GeoDataFrame shape: (4473, 2) (2D shapes)
└── Tables
└── 'table': AnnData (4473, 18085)
with coordinate systems:
▸ 'GSM8513879_SPA7_D', with elements:
GSM8513879_SPA7_D_hires_image (Images), GSM8513879_SPA7_D (Shapes)
▸ 'GSM8513879_SPA7_D_downscaled_hires', with elements:
GSM8513879_SPA7_D_hires_image (Images), GSM8513879_SPA7_D (Shapes)
▸ 'GSM8513879_SPA7_D_downscaled_lowres', with elements:
GSM8513879_SPA7_D (Shapes) Load in Python
import lamindb as ln
db = ln.DB("scverse/spatialdata-db")
artifact = db.Artifact.get("o7c2aOOvvbTxrp0t") # 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/o7c2aOOvvbTxrp0t
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid o7c2aOOvvbTxrp0t Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["o7c2aOOvvbTxrp0t0000"])[0]
ds.elements() # inspect without downloading
sdata = ds.load(lazy=False) # copy to the local cache and openPart of collection
Resolving spatial subclonal genomic heterogeneity of loss of heterozygosity and extrachromosomal DNA in gliomas→ 17 datasets · other
Metadata
- Technology
- Visium
- Organism
- human
- Tissue
- brain
- Condition
- brain glioma
- Modality
- RNA
- Observations
- 4,473
- Tier
- bronze
- Chemistry
- Visium v1
- Resolution
- 2,000 × 1,968 px
- mpp
- 3.349 µm/px
- Size
- 35 MB
- Sample ID
- GSM8513879
- License
- unknown
- Published
- Jan 2, 2025
Cite this dataset
No linked publication found — please cite the data source: NCBI GEO ↗.
Source: NCBI GEO ↗ · Reprocessed to SpatialData by SpatialData-DB