Visium HD
Human brain
visium-hd-cytassist-6p5mm-human-brain-cancer
silver Interactive viewer H&E brain cancer No linked publication
print(sdata)
SpatialData object
├── Images
│ ├── 'Visium_HD_6p5mm_Human_Brain_Cancer_full_image': DataTree[cyx] (3, 30023, 31080), (3, 15011, 15540), (3, 7505, 7770), (3, 3752, 3885), (3, 1876, 1942)
│ ├── 'Visium_HD_6p5mm_Human_Brain_Cancer_hires_image': DataArray[cyx] (3, 5796, 6000)
│ └── 'Visium_HD_6p5mm_Human_Brain_Cancer_lowres_image': DataArray[cyx] (3, 580, 600)
├── Shapes
│ ├── 'Visium_HD_6p5mm_Human_Brain_Cancer_square_002um': GeoDataFrame shape: (8315401, 1) (2D shapes)
│ ├── 'Visium_HD_6p5mm_Human_Brain_Cancer_square_008um': GeoDataFrame shape: (521175, 1) (2D shapes)
│ ├── 'Visium_HD_6p5mm_Human_Brain_Cancer_square_016um': GeoDataFrame shape: (130775, 1) (2D shapes)
│ └── 'Visium_HD_6p5mm_Human_Brain_Cancer_square_016um_for_vitessce': GeoDataFrame shape: (130775, 2) (2D shapes)
└── Tables
├── 'square_002um': AnnData (8315401, 18085)
├── 'square_008um': AnnData (521175, 18085)
└── 'square_016um': AnnData (130775, 18085)
with coordinate systems:
▸ 'Visium_HD_6p5mm_Human_Brain_Cancer', with elements:
Visium_HD_6p5mm_Human_Brain_Cancer_full_image (Images), Visium_HD_6p5mm_Human_Brain_Cancer_hires_image (Images), Visium_HD_6p5mm_Human_Brain_Cancer_lowres_image (Images), Visium_HD_6p5mm_Human_Brain_Cancer_square_002um (Shapes), Visium_HD_6p5mm_Human_Brain_Cancer_square_008um (Shapes), Visium_HD_6p5mm_Human_Brain_Cancer_square_016um (Shapes), Visium_HD_6p5mm_Human_Brain_Cancer_square_016um_for_vitessce (Shapes)
▸ 'Visium_HD_6p5mm_Human_Brain_Cancer_downscaled_hires', with elements:
Visium_HD_6p5mm_Human_Brain_Cancer_hires_image (Images), Visium_HD_6p5mm_Human_Brain_Cancer_square_002um (Shapes), Visium_HD_6p5mm_Human_Brain_Cancer_square_008um (Shapes), Visium_HD_6p5mm_Human_Brain_Cancer_square_016um (Shapes), Visium_HD_6p5mm_Human_Brain_Cancer_square_016um_for_vitessce (Shapes)
▸ 'Visium_HD_6p5mm_Human_Brain_Cancer_downscaled_lowres', with elements:
Visium_HD_6p5mm_Human_Brain_Cancer_lowres_image (Images), Visium_HD_6p5mm_Human_Brain_Cancer_square_002um (Shapes), Visium_HD_6p5mm_Human_Brain_Cancer_square_008um (Shapes), Visium_HD_6p5mm_Human_Brain_Cancer_square_016um (Shapes), Visium_HD_6p5mm_Human_Brain_Cancer_square_016um_for_vitessce (Shapes) Python · sddb client
from sddb import Catalog
ds = Catalog().dataset("2TR7434o4LgFuwCi0000")
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("2TR7434o4LgFuwCi") # 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 2TR7434o4LgFuwCi0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/2TR7434o4LgFuwCi
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid 2TR7434o4LgFuwCiLicense: CC BY 4.0
Metadata
- Technology
- Visium HD
- Organism
- human
- Tissue
- brain
- Condition
- brain cancer
- Modality
- RNA
- Observations (bins)
- 521,175
- Tier
- silver
- Chemistry
- Visium HD v1
- Magnification
- 40x
- Resolution
- 31,080 × 30,023 px
- mpp
- 0.274 µm/px
- Size
- 4.1 GB
- Sample ID
- visium-hd-cytassist-6p5mm-human-brain-cancer
- License
- CC BY 4.0
- Published
- Jul 14, 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