Collections / geo-gse322640

geo-gse322640

Datasets10
Size~502 MB
AssayVisium HD
Samplehuman · bone element
KindComparison
Flag a data issue
Python · sddb client
from sddb import Catalog

cohort = Catalog().collection("geo-gse322640")
cohort.members        # the 10 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="geo-gse322640")
coll.ordered_artifacts.to_dataframe()   # the 10 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 geo-gse322640 --dest data/

Licenses: 10 NCBI GEO policy

Open in Vitessce
Visium HD
Human bone element
GSM9555996
human bone element Ewing sarcoma 25.1 MB 41,222 bins bronze H&E NCBI GEO policy
TechnologyVisium HD
Organismhuman
Tissuebone element
ConditionEwing sarcoma
Size25.1 MB
Bins41,222
bronze H&E NCBI GEO policy Open in Vitessce
Open in Vitessce
Visium HD
Human bone element
GSM9555997
human bone element Ewing sarcoma 29.1 MB 26,164 bins bronze H&E NCBI GEO policy
TechnologyVisium HD
Organismhuman
Tissuebone element
ConditionEwing sarcoma
Size29.1 MB
Bins26,164
bronze H&E NCBI GEO policy Open in Vitessce
Open in Vitessce
Visium HD
Human bone element
GSM9556002
human bone element Ewing sarcoma 151 MB 126,298 bins bronze H&E NCBI GEO policy
TechnologyVisium HD
Organismhuman
Tissuebone element
ConditionEwing sarcoma
Size151 MB
Bins126,298
bronze H&E NCBI GEO policy Open in Vitessce
Open in Vitessce
Visium HD
Human bone element
GSM9556004
human bone element Ewing sarcoma 9.5 MB 13,627 bins silver H&E NCBI GEO policy
TechnologyVisium HD
Organismhuman
Tissuebone element
ConditionEwing sarcoma
Size9.5 MB
Bins13,627
silver H&E NCBI GEO policy Open in Vitessce
Open in Vitessce
Visium HD
Human bone element
GSM9555995
human bone element Ewing sarcoma 92.6 MB 71,030 bins bronze H&E NCBI GEO policy
TechnologyVisium HD
Organismhuman
Tissuebone element
ConditionEwing sarcoma
Size92.6 MB
Bins71,030
bronze H&E NCBI GEO policy Open in Vitessce
Open in Vitessce
Visium HD
Human bone element
GSM9556000
human bone element Ewing sarcoma 58.5 MB 94,034 bins bronze H&E NCBI GEO policy
TechnologyVisium HD
Organismhuman
Tissuebone element
ConditionEwing sarcoma
Size58.5 MB
Bins94,034
bronze H&E NCBI GEO policy Open in Vitessce
Open in Vitessce
Visium HD
Human bone element
GSM9555999
human bone element Ewing sarcoma 42.7 MB 26,680 bins bronze H&E NCBI GEO policy
TechnologyVisium HD
Organismhuman
Tissuebone element
ConditionEwing sarcoma
Size42.7 MB
Bins26,680
bronze H&E NCBI GEO policy Open in Vitessce
Open in Vitessce
Visium HD
Human bone element
GSM9556001
human bone element Ewing sarcoma 49.5 MB 46,513 bins bronze H&E NCBI GEO policy
TechnologyVisium HD
Organismhuman
Tissuebone element
ConditionEwing sarcoma
Size49.5 MB
Bins46,513
bronze H&E NCBI GEO policy Open in Vitessce
Open in Vitessce
Visium HD
Human bone element
GSM9556003
human bone element Ewing sarcoma 25.4 MB 10,355 bins silver H&E NCBI GEO policy
TechnologyVisium HD
Organismhuman
Tissuebone element
ConditionEwing sarcoma
Size25.4 MB
Bins10,355
silver H&E NCBI GEO policy Open in Vitessce
Visium HD
Human bone element
GSM9555998
human bone element Ewing sarcoma 18.8 MB 27,722 bins bronze H&E NCBI GEO policy
TechnologyVisium HD
Organismhuman
Tissuebone element
ConditionEwing sarcoma
Size18.8 MB
Bins27,722
bronze H&E NCBI GEO policy