Visium
Human skin of body
GSM7932818
silver Interactive viewer H&E systemic sclerosis No linked publication
print(sdata)
SpatialData object
├── Images
│ ├── 'GSM7932818_sample_B_spatial-seq_B_hires_image': DataArray[cyx] (3, 1842, 2000)
│ └── 'GSM7932818_sample_B_spatial-seq_B_lowres_image': DataArray[cyx] (3, 553, 600)
├── Shapes
│ └── 'GSM7932818_sample_B_spatial-seq_B': GeoDataFrame shape: (907, 2) (2D shapes)
└── Tables
└── 'table': AnnData (907, 33538)
with coordinate systems:
▸ 'GSM7932818_sample_B_spatial-seq_B', with elements:
GSM7932818_sample_B_spatial-seq_B_hires_image (Images), GSM7932818_sample_B_spatial-seq_B_lowres_image (Images), GSM7932818_sample_B_spatial-seq_B (Shapes)
▸ 'GSM7932818_sample_B_spatial-seq_B_downscaled_hires', with elements:
GSM7932818_sample_B_spatial-seq_B_hires_image (Images), GSM7932818_sample_B_spatial-seq_B (Shapes)
▸ 'GSM7932818_sample_B_spatial-seq_B_downscaled_lowres', with elements:
GSM7932818_sample_B_spatial-seq_B_lowres_image (Images), GSM7932818_sample_B_spatial-seq_B (Shapes) Load in Python
import lamindb as ln
db = ln.DB("scverse/spatialdata-db")
artifact = db.Artifact.get("Km7Y8x7YVF6rzNuV") # 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/Km7Y8x7YVF6rzNuV
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid Km7Y8x7YVF6rzNuV Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["Km7Y8x7YVF6rzNuV0000"])[0]
ds.elements() # inspect without downloading
sdata = ds.load(lazy=False) # copy to the local cache and openPart of collection
Systems-based identification of the Hippo pathway for promoting fibrotic mesenchymal differentiation in systemic sclerosis→ 4 datasets · other
Metadata
- Technology
- Visium
- Organism
- human
- Tissue
- skin of body
- Condition
- systemic sclerosis
- Modality
- RNA
- Observations
- 907
- Tier
- silver
- Chemistry
- Visium v1
- Resolution
- 2,000 × 1,842 px
- mpp
- 4.256 µm/px
- Size
- 8.4 MB
- Sample ID
- GSM7932818
- License
- unknown
- Published
- Dec 6, 2023
Cite this dataset
No linked publication found — please cite the data source: NCBI GEO ↗.
Source: NCBI GEO ↗ · Reprocessed to SpatialData by SpatialData-DB