Collections / Visium CytAssist Gene Expression of Post-Xenium vs Control

Visium CytAssist Gene Expression of Post-Xenium vs Control

Datasets5
Size~476 MB
AssayVisium
Samplemultiple · multiple
KindComparison
Flag a data issue
Python · sddb client
from sddb import Catalog

cohort = Catalog().collection("visium-cytassist-gene-expression-of-post-xenium-vs-control")
cohort.members        # the 5 datasets as a table

print(cohort.licenses())              # check the terms before you download

sdatas = cohort.to_dict()             # {uid: SpatialData}, cached locally
# or keep the .zarr files in a folder of your choice:
# sdatas = cohort.to_dict(dest="data/")
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")
coll = db.Collection.get(key="Visium CytAssist Gene Expression of Post-Xenium vs Control")
coll.ordered_artifacts.to_dataframe()   # the 5 members, ordered

# download every member .zarr to the local cache:
paths = [a.cache() for a in coll.ordered_artifacts.all()]
Shell
# sddb client: download every member .zarr into data/
sddb-cli download --collection visium-cytassist-gene-expression-of-post-xenium-vs-control --dest data/

Licenses: 5 CC BY 4.0

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