Collections / figshare-31429790

figshare-31429790

Datasets4
Size~116 MB
TechnologyVisium
Samplehuman · breast
KindPublication
Flag a data issue
10.6084/m9.figshare.31429790.v1 ↗
Python · sddb client
from sddb import Catalog

cohort = Catalog().collection("figshare-31429790")
cohort.members        # the 4 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="figshare-31429790")
coll.ordered_artifacts.to_dataframe()   # the 4 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 figshare-31429790 --dest data/

Licenses: 4 CC BY 4.0

Open in Vitessce
Visium
Human breast
Spatial transcriptomic (Visium) data from invasive lobular breast cancer (ST04_531554)
human breast invasive lobular breast carcinoma 44.1 MB 2,587 spots bronze H&E
TechnologyVisium
Organismhuman
Tissuebreast
Conditioninvasive lobular breast carcinoma
Size44.1 MB
Spots2,587
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Human breast
Spatial transcriptomic (Visium) data from invasive lobular breast cancer (ST02_511628)
human breast invasive lobular breast carcinoma 29.9 MB 1,816 spots bronze H&E
TechnologyVisium
Organismhuman
Tissuebreast
Conditioninvasive lobular breast carcinoma
Size29.9 MB
Spots1,816
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Human breast
Spatial transcriptomic (Visium) data from invasive lobular breast cancer (ST03_501130)
human breast invasive lobular breast carcinoma 26.7 MB 1,726 spots bronze H&E
TechnologyVisium
Organismhuman
Tissuebreast
Conditioninvasive lobular breast carcinoma
Size26.7 MB
Spots1,726
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Human breast
Spatial transcriptomic (Visium) data from invasive lobular breast cancer (ST01_505985)
human breast invasive lobular breast carcinoma 15.1 MB 1,674 spots bronze H&E
TechnologyVisium
Organismhuman
Tissuebreast
Conditioninvasive lobular breast carcinoma
Size15.1 MB
Spots1,674
bronze H&E Open in Vitessce

Cite this collection

No linked publication found — please cite the data source.