Collections / geo-gse349411

geo-gse349411

Datasets1
Size~169 MB
AssayVizgen MERSCOPE
Samplemouse · brain
KindOther
Flag a data issue
Download the whole collection
Python · sddb client 
from sddb import Catalog

cohort = Catalog().collection("geo-gse349411")
cohort.members        # the 1 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="geo-gse349411")
coll.ordered_artifacts.to_dataframe()   # the 1 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 geo-gse349411 --dest data/
Install (Python 3.12+) Docs →

Licenses: 1 NCBI GEO policy

Member datasets · 1
Open in Vitessce
Vizgen MERSCOPE
Mouse brain
GSM10094157
mouse brain glioblastoma 169 MB 145,614 cells silver NCBI GEO policy
TechnologyVizgen MERSCOPE
Organismmouse
Tissuebrain
Conditionglioblastoma
Size169 MB
Cells145,614
silver NCBI GEO policy Open in Vitessce