MERFISH
Human liver
10634153:batch1_AM061
silver Interactive viewer ✓ Verified publication
print(sdata)
SpatialData object
├── Shapes
│ └── 'cells': GeoDataFrame shape: (34066, 2) (2D shapes)
└── Tables
└── 'table': AnnData (34066, 313)
with coordinate systems:
▸ 'global', with elements:
cells (Shapes) Python · sddb client
from sddb import Catalog
ds = Catalog().dataset("OeEiIVmxJjo1zJEO0000")
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("OeEiIVmxJjo1zJEO") # 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 OeEiIVmxJjo1zJEO0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/OeEiIVmxJjo1zJEO
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid OeEiIVmxJjo1zJEOLicense: CC0 1.0
Metadata
- Technology
- MERFISH
- Organism
- human
- Tissue
- liver
- Modality
- RNA
- Observations (cells)
- 34,066
- Tier
- silver
- Size
- 12.2 MB
- Sample ID
- 10634153:batch1_AM061
- License
- CC0 1.0
- Published
- Feb 8, 2024
Cite this dataset
doi.org/10.1038/s41467-024-55325-4 ↗ BibTeX
@article{zenodo:10634153,
doi = {10.1038/s41467-024-55325-4},
title = {10634153:batch6_AM062},
year = {2025}
}Source: zenodo.org ↗ · License: CC0 1.0 ↗ · Reprocessed to SpatialData by SpatialData-DB