Collections / Prostate ST Internal

Prostate ST Internal

Datasets5
Size~2.8 GB
AssayVisium
Samplehuman · prostate gland
KindOther
Flag a data issue
Download the whole collection
Python · sddb client 
from sddb import Catalog

cohort = Catalog().collection("hest-prostate-st-internal")
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/")
Install (Python 3.12+) Docs →
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="hest-prostate-st-internal")
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()]
Install (Python 3.12+) Docs →
Shell 
# sddb client: download every member .zarr into data/
sddb-cli download --collection hest-prostate-st-internal --dest data/
Install (Python 3.12+) Docs →

Licenses: 5 CC BY-NC-SA 4.0

Member datasets · 5
Open in Vitessce
Visium
Human prostate gland
INT25
human prostate gland prostate adenocarcinoma 547 MB 3,808 spots silver H&E
TechnologyVisium
Organismhuman
Tissueprostate gland
Conditionprostate adenocarcinoma
Size547 MB
Spots3,808
silver H&E Open in Vitessce
Open in Vitessce
Visium
Human prostate gland
INT27
human prostate gland prostate adenocarcinoma 612 MB 4,176 spots silver H&E
TechnologyVisium
Organismhuman
Tissueprostate gland
Conditionprostate adenocarcinoma
Size612 MB
Spots4,176
silver H&E Open in Vitessce
Open in Vitessce
Visium
Human prostate gland
INT35
human prostate gland prostate adenocarcinoma 550 MB 3,998 spots silver H&E
TechnologyVisium
Organismhuman
Tissueprostate gland
Conditionprostate adenocarcinoma
Size550 MB
Spots3,998
silver H&E Open in Vitessce
Open in Vitessce
Visium
Human prostate gland
INT28
human prostate gland prostate adenocarcinoma 551 MB 3,990 spots silver H&E
TechnologyVisium
Organismhuman
Tissueprostate gland
Conditionprostate adenocarcinoma
Size551 MB
Spots3,990
silver H&E Open in Vitessce
Open in Vitessce
Visium
Human prostate gland
INT26
human prostate gland prostate adenocarcinoma 533 MB 3,894 spots silver H&E
TechnologyVisium
Organismhuman
Tissueprostate gland
Conditionprostate adenocarcinoma
Size533 MB
Spots3,894
silver H&E Open in Vitessce