Visium HD
Human colon
visium-hd-cytassist-11mm-human-colon-cancer-HE
silver Interactive viewer H&E malignant colon neoplasm No linked publication
print(sdata)
SpatialData object
├── Images
│ ├── 'Visium_HD_11mm_Human_Colon_Cancer_Fresh_Frozen_full_image': DataTree[cyx] (3, 44544, 66699), (3, 22272, 33349), (3, 11136, 16674), (3, 5568, 8337), (3, 2784, 4168)
│ ├── 'Visium_HD_11mm_Human_Colon_Cancer_Fresh_Frozen_hires_image': DataArray[cyx] (3, 4007, 6000)
│ └── 'Visium_HD_11mm_Human_Colon_Cancer_Fresh_Frozen_lowres_image': DataArray[cyx] (3, 401, 600)
├── Shapes
│ ├── 'Visium_HD_11mm_Human_Colon_Cancer_Fresh_Frozen_square_002um': GeoDataFrame shape: (27477504, 1) (2D shapes)
│ ├── 'Visium_HD_11mm_Human_Colon_Cancer_Fresh_Frozen_square_008um': GeoDataFrame shape: (1720912, 1) (2D shapes)
│ └── 'Visium_HD_11mm_Human_Colon_Cancer_Fresh_Frozen_square_016um': GeoDataFrame shape: (432011, 1) (2D shapes)
└── Tables
├── 'square_002um': AnnData (27477504, 18085)
├── 'square_008um': AnnData (1720912, 18085)
└── 'square_016um': AnnData (432011, 18085)
with coordinate systems:
▸ 'Visium_HD_11mm_Human_Colon_Cancer_Fresh_Frozen', with elements:
Visium_HD_11mm_Human_Colon_Cancer_Fresh_Frozen_full_image (Images), Visium_HD_11mm_Human_Colon_Cancer_Fresh_Frozen_hires_image (Images), Visium_HD_11mm_Human_Colon_Cancer_Fresh_Frozen_lowres_image (Images), Visium_HD_11mm_Human_Colon_Cancer_Fresh_Frozen_square_002um (Shapes), Visium_HD_11mm_Human_Colon_Cancer_Fresh_Frozen_square_008um (Shapes), Visium_HD_11mm_Human_Colon_Cancer_Fresh_Frozen_square_016um (Shapes)
▸ 'Visium_HD_11mm_Human_Colon_Cancer_Fresh_Frozen_downscaled_hires', with elements:
Visium_HD_11mm_Human_Colon_Cancer_Fresh_Frozen_hires_image (Images), Visium_HD_11mm_Human_Colon_Cancer_Fresh_Frozen_square_002um (Shapes), Visium_HD_11mm_Human_Colon_Cancer_Fresh_Frozen_square_008um (Shapes), Visium_HD_11mm_Human_Colon_Cancer_Fresh_Frozen_square_016um (Shapes)
▸ 'Visium_HD_11mm_Human_Colon_Cancer_Fresh_Frozen_downscaled_lowres', with elements:
Visium_HD_11mm_Human_Colon_Cancer_Fresh_Frozen_lowres_image (Images), Visium_HD_11mm_Human_Colon_Cancer_Fresh_Frozen_square_002um (Shapes), Visium_HD_11mm_Human_Colon_Cancer_Fresh_Frozen_square_008um (Shapes), Visium_HD_11mm_Human_Colon_Cancer_Fresh_Frozen_square_016um (Shapes) Load in Python
import lamindb as ln
db = ln.DB("scverse/spatialdata-db")
artifact = db.Artifact.get("Bs6U7OMDzpve1sXS") # 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/Bs6U7OMDzpve1sXS
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid Bs6U7OMDzpve1sXS Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["Bs6U7OMDzpve1sXS0001"])[0]
ds.elements() # inspect without downloading
sdata = ds.load(lazy=False) # copy to the local cache and openMetadata
- Technology
- Visium HD
- Organism
- human
- Tissue
- colon
- Condition
- malignant colon neoplasm
- Modality
- RNA
- Observations
- 1,720,912
- Tier
- silver
- Chemistry
- Visium HD v1
- Magnification
- 40x
- Resolution
- 66,699 × 44,544 px
- mpp
- 0.274 µm/px
- Size
- 17 GB
- Sample ID
- visium-hd-cytassist-11mm-human-colon-cancer-HE
- License
- CC BY 4.0
- Published
- Apr 28, 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