Collections / Recirculating regulatory T cells mediate thymic regeneration [visium]

Recirculating regulatory T cells mediate thymic regeneration [visium]

Recirculating regulatory T cells mediate thymic regeneration [visium]

Datasets6
Size~504 MB
AssayVisium
Samplemouse · thymus
KindTime course
Flag a data issue
PMID:39892391 ↗
Python · sddb client
from sddb import Catalog

cohort = Catalog().collection("geo-gse244641")
cohort.members        # the 6 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-gse244641")
coll.ordered_artifacts.to_dataframe()   # the 6 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-gse244641 --dest data/

Licenses: 6 NCBI GEO policy

Open in Vitessce
Visium
Mouse thymus
GSM7823010
mouse thymus 94.8 MB 1,625 spots silver H&E NCBI GEO policy
TechnologyVisium
Organismmouse
Tissuethymus
Size94.8 MB
Spots1,625
silver H&E NCBI GEO policy Open in Vitessce
Open in Vitessce
Visium
Mouse thymus
GSM7823011
mouse thymus 109 MB 1,815 spots silver H&E NCBI GEO policy
TechnologyVisium
Organismmouse
Tissuethymus
Size109 MB
Spots1,815
silver H&E NCBI GEO policy Open in Vitessce
Open in Vitessce
Visium
Mouse thymus
GSM7823012
mouse thymus 54.4 MB 841 spots silver H&E NCBI GEO policy
TechnologyVisium
Organismmouse
Tissuethymus
Size54.4 MB
Spots841
silver H&E NCBI GEO policy Open in Vitessce
Open in Vitessce
Visium
Mouse thymus
GSM7823013
mouse thymus 81.0 MB 1,613 spots silver H&E NCBI GEO policy
TechnologyVisium
Organismmouse
Tissuethymus
Size81.0 MB
Spots1,613
silver H&E NCBI GEO policy Open in Vitessce
Open in Vitessce
Visium
Mouse thymus
GSM7823015
mouse thymus 80.6 MB 1,443 spots silver H&E NCBI GEO policy
TechnologyVisium
Organismmouse
Tissuethymus
Size80.6 MB
Spots1,443
silver H&E NCBI GEO policy Open in Vitessce
Open in Vitessce
Visium
Mouse thymus
GSM7823014
mouse thymus 84.1 MB 1,612 spots silver H&E NCBI GEO policy
TechnologyVisium
Organismmouse
Tissuethymus
Size84.1 MB
Spots1,612
silver H&E NCBI GEO policy Open in Vitessce

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