Stereo-seq
Human prefrontal cortex
GSM8330061
bronze Interactive viewer Alzheimer disease Provisional
print(sdata)
SpatialData object
├── Shapes
│ ├── 'B02008D2_cell_boundaries': GeoDataFrame shape: (80183, 1) (2D shapes)
│ ├── 'B02008D2_cell_boundaries_for_vitessce': GeoDataFrame shape: (80183, 2) (2D shapes)
│ └── 'B02008D2_square_025um': GeoDataFrame shape: (120891, 1) (2D shapes)
└── Tables
├── 'square_025um': AnnData (120891, 26933)
└── 'table': AnnData (80183, 27150)
with coordinate systems:
▸ 'global', with elements:
B02008D2_cell_boundaries (Shapes), B02008D2_cell_boundaries_for_vitessce (Shapes), B02008D2_square_025um (Shapes) Python · sddb client
from sddb import Catalog
ds = Catalog().dataset("MorARRr4IWqZlXXn0000")
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("MorARRr4IWqZlXXn") # 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 MorARRr4IWqZlXXn0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/MorARRr4IWqZlXXn
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid MorARRr4IWqZlXXnLicense: NCBI GEO policy
Metadata
- Technology
- Stereo-seq
- Organism
- human
- Tissue
- prefrontal cortex
- Condition
- Alzheimer disease
- Modality
- RNA
- Observations
- 80,183
- Tier
- bronze
- Size
- 268 MB
- Sample ID
- GSM8330061
- License
- NCBI GEO policy
- Published
- Nov 12, 2024
Cite this dataset
No linked publication found — please cite the data source: NCBI GEO ↗.
Source: NCBI GEO ↗ · License: NCBI GEO policy ↗ · Reprocessed to SpatialData by SpatialData-DB