Collections / geo-gse156862

geo-gse156862

Datasets5
Size~18.8 MB
AssayDBiT-seq
Samplemouse · multiple
KindOther
Flag a data issue
Download the whole collection
Python · sddb client 
from sddb import Catalog

cohort = Catalog().collection("geo-gse156862")
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="geo-gse156862")
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 geo-gse156862 --dest data/
Install (Python 3.12+) Docs →

Licenses: 5 NCBI GEO policy

Member datasets · 5
Open in Vitessce
DBiT-seq
Mouse cardiac atrium
GSM4745618
mouse cardiac atrium 7.1 MB 2,107 pixels bronze NCBI GEO policy
TechnologyDBiT-seq
Organismmouse
Tissuecardiac atrium
Size7.1 MB
Pixels2,107
bronze NCBI GEO policy Open in Vitessce
Open in Vitessce
DBiT-seq
Mouse cardiac ventricle
GSM4745619
mouse cardiac ventricle 5.7 MB 2,039 pixels bronze NCBI GEO policy
TechnologyDBiT-seq
Organismmouse
Tissuecardiac ventricle
Size5.7 MB
Pixels2,039
bronze NCBI GEO policy Open in Vitessce
Open in Vitessce
DBiT-seq
Mouse embryo
GSM4745615
mouse embryo 2.3 MB 2,306 pixels bronze NCBI GEO policy
TechnologyDBiT-seq
Organismmouse
Tissueembryo
Size2.3 MB
Pixels2,306
bronze NCBI GEO policy Open in Vitessce
Open in Vitessce
DBiT-seq
Mouse aorta
GSM4745617
mouse aorta 1.3 MB 533 pixels bronze NCBI GEO policy
TechnologyDBiT-seq
Organismmouse
Tissueaorta
Size1.3 MB
Pixels533
bronze NCBI GEO policy Open in Vitessce
Open in Vitessce
DBiT-seq
Mouse embryo
GSM4745616
mouse embryo 2.5 MB 2,130 pixels bronze NCBI GEO policy
TechnologyDBiT-seq
Organismmouse
Tissueembryo
Size2.5 MB
Pixels2,130
bronze NCBI GEO policy Open in Vitessce