Visium HD
Rat liver
visium-hd-cytassist-6p5mm-rat-liver
silver Interactive viewer H&E No linked publication
print(sdata)
SpatialData object
├── Images
│ ├── 'Visium_HD_6p5mm_Rat_Liver_cytassist_image': DataArray[cyx] (3, 2999, 3198)
│ ├── 'Visium_HD_6p5mm_Rat_Liver_full_image': DataTree[cyx] (3, 40028, 39629), (3, 20014, 19814), (3, 10007, 9907), (3, 5003, 4953), (3, 2501, 2476)
│ ├── 'Visium_HD_6p5mm_Rat_Liver_hires_image': DataArray[cyx] (3, 6000, 5940)
│ └── 'Visium_HD_6p5mm_Rat_Liver_lowres_image': DataArray[cyx] (3, 600, 594)
├── Shapes
│ ├── 'Visium_HD_6p5mm_Rat_Liver_square_002um': GeoDataFrame shape: (7961640, 1) (2D shapes)
│ ├── 'Visium_HD_6p5mm_Rat_Liver_square_008um': GeoDataFrame shape: (499460, 1) (2D shapes)
│ ├── 'Visium_HD_6p5mm_Rat_Liver_square_016um': GeoDataFrame shape: (125459, 1) (2D shapes)
│ └── 'Visium_HD_6p5mm_Rat_Liver_square_016um_for_vitessce': GeoDataFrame shape: (125459, 2) (2D shapes)
└── Tables
├── 'square_002um': AnnData (7961640, 21429)
├── 'square_008um': AnnData (499460, 21429)
└── 'square_016um': AnnData (125459, 21429)
with coordinate systems:
▸ 'Visium_HD_6p5mm_Rat_Liver', with elements:
Visium_HD_6p5mm_Rat_Liver_cytassist_image (Images), Visium_HD_6p5mm_Rat_Liver_full_image (Images), Visium_HD_6p5mm_Rat_Liver_hires_image (Images), Visium_HD_6p5mm_Rat_Liver_lowres_image (Images), Visium_HD_6p5mm_Rat_Liver_square_002um (Shapes), Visium_HD_6p5mm_Rat_Liver_square_008um (Shapes), Visium_HD_6p5mm_Rat_Liver_square_016um (Shapes), Visium_HD_6p5mm_Rat_Liver_square_016um_for_vitessce (Shapes)
▸ 'Visium_HD_6p5mm_Rat_Liver_downscaled_hires', with elements:
Visium_HD_6p5mm_Rat_Liver_hires_image (Images), Visium_HD_6p5mm_Rat_Liver_square_002um (Shapes), Visium_HD_6p5mm_Rat_Liver_square_008um (Shapes), Visium_HD_6p5mm_Rat_Liver_square_016um (Shapes), Visium_HD_6p5mm_Rat_Liver_square_016um_for_vitessce (Shapes)
▸ 'Visium_HD_6p5mm_Rat_Liver_downscaled_lowres', with elements:
Visium_HD_6p5mm_Rat_Liver_lowres_image (Images), Visium_HD_6p5mm_Rat_Liver_square_002um (Shapes), Visium_HD_6p5mm_Rat_Liver_square_008um (Shapes), Visium_HD_6p5mm_Rat_Liver_square_016um (Shapes), Visium_HD_6p5mm_Rat_Liver_square_016um_for_vitessce (Shapes) Load in Python
import lamindb as ln
db = ln.DB("scverse/spatialdata-db")
artifact = db.Artifact.get("2Lnjgyk6ZprYkfDI") # 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/2Lnjgyk6ZprYkfDI
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid 2Lnjgyk6ZprYkfDI Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["2Lnjgyk6ZprYkfDI0003"])[0]
ds.elements() # inspect without downloading
sdata = ds.load(lazy=False) # copy to the local cache and openMetadata
- Technology
- Visium HD
- Organism
- rat
- Tissue
- liver
- Modality
- RNA
- Observations
- 499,460
- Tier
- silver
- Chemistry
- Visium HD v1
- Magnification
- 40x
- Resolution
- 39,629 × 40,028 px
- mpp
- 0.274 µm/px
- Size
- 5.4 GB
- Sample ID
- visium-hd-cytassist-6p5mm-rat-liver
- License
- CC BY 4.0
- Published
- Aug 3, 2026
Cite this dataset
No linked publication found — please cite the data source: 10x Genomics ↗.
Source: 10x Genomics ↗ · License: CC BY 4.0 ↗ · Reprocessed to SpatialData by SpatialData-DB