René's URL Explorer Experiment


Title: An open and universal framework for processing spatial omics data. — spatialdata

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Domain: spatialdata.scverse.org

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readthedocs-project-slugscverse-spatialdata
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Links:

Skip to main contenthttps://spatialdata.scverse.org#main-content
https://spatialdata.scverse.org
Installationhttps://spatialdata.scverse.org/installation.html
SpatialData User Guidehttps://spatialdata.scverse.org/user_guide.html
APIhttps://spatialdata.scverse.org/api.html
SpatialData objecthttps://spatialdata.scverse.org/api/SpatialData.html
Input/Outputhttps://spatialdata.scverse.org/api/io.html
Operationshttps://spatialdata.scverse.org/api/operations.html
Transformationshttps://spatialdata.scverse.org/api/transformations.html
Transformations utilshttps://spatialdata.scverse.org/api/transformations_utils.html
Datasetshttps://spatialdata.scverse.org/api/datasets.html
Data Loadershttps://spatialdata.scverse.org/api/dataloader.html
Modelshttps://spatialdata.scverse.org/api/models.html
Models utilshttps://spatialdata.scverse.org/api/models_utils.html
Testing utilitieshttps://spatialdata.scverse.org/api/testing.html
Data formats (advanced)https://spatialdata.scverse.org/api/data_formats.html
Tutorialshttps://spatialdata.scverse.org/tutorials/notebooks/notebooks.html
Intro to SpatialDatahttps://spatialdata.scverse.org/tutorials/notebooks/notebooks/examples/intro.html
Transformations and coordinate systemshttps://spatialdata.scverse.org/tutorials/notebooks/notebooks/examples/transformations.html
Spatial query/subsamplinghttps://spatialdata.scverse.org/tutorials/notebooks/notebooks/examples/spatial_query.html
Annotating regions of interest with naparihttps://spatialdata.scverse.org/tutorials/notebooks/notebooks/examples/napari_rois.html
Use landmark annotations to align multiple -omics layershttps://spatialdata.scverse.org/tutorials/notebooks/notebooks/examples/alignment_using_landmarks.html
Create SpatialData objects from scratchhttps://spatialdata.scverse.org/tutorials/notebooks/notebooks/examples/sdata_from_scratch.html
Working with annotations in SpatialDatahttps://spatialdata.scverse.org/tutorials/notebooks/notebooks/examples/tables.html
Filtering SpatialData elements with Table Querieshttps://spatialdata.scverse.org/tutorials/notebooks/notebooks/examples/table-queries.html
I. Use SpatialData with your data: the SpatialData object.https://spatialdata.scverse.org/tutorials/notebooks/notebooks/examples/models1.html
II. Use SpatialData with your data: SpatialElements and tableshttps://spatialdata.scverse.org/tutorials/notebooks/notebooks/examples/models2.html
Integrate/aggregate signals across spatial layershttps://spatialdata.scverse.org/tutorials/notebooks/notebooks/examples/aggregation.html
Interchangeability between raster and vector representationshttps://spatialdata.scverse.org/tutorials/notebooks/notebooks/examples/labels_shapes_interchangeability.html
Squidpy integrationhttps://spatialdata.scverse.org/tutorials/notebooks/notebooks/examples/squidpy_integration.html
Deep learning example on image tileshttps://spatialdata.scverse.org/tutorials/notebooks/notebooks/examples/densenet.html
Technology focus: 10x Genomics Visiumhttps://spatialdata.scverse.org/tutorials/notebooks/notebooks/examples/technology_visium.html
Technology focus: MIBI-TOFhttps://spatialdata.scverse.org/tutorials/notebooks/notebooks/examples/technology_mibitof.html
Technology focus: MERFISHhttps://spatialdata.scverse.org/tutorials/notebooks/notebooks/examples/technology_merfish.html
Technology focus: Visium HDhttps://spatialdata.scverse.org/tutorials/notebooks/notebooks/examples/technology_visium_hd.html
Technology focus: Visium HD (SpaceRanger 4.0)https://spatialdata.scverse.org/tutorials/notebooks/notebooks/examples/technology_visium_hd_mouse_4.0.1.html
Technology focus: Xeniumhttps://spatialdata.scverse.org/tutorials/notebooks/notebooks/examples/technology_xenium.html
Technology focus: SpaceMhttps://spatialdata.scverse.org/tutorials/notebooks/notebooks/examples/technology_spacem.html
Implicit performance improvements when plotting raster datahttps://spatialdata.scverse.org/tutorials/notebooks/notebooks/examples/speed_up_illustration.html
Raster data and translations (technical topic)https://spatialdata.scverse.org/tutorials/notebooks/notebooks/examples/transformations_advanced.html
Spatial omics datasetshttps://spatialdata.scverse.org/tutorials/notebooks/datasets/README.html
Glossaryhttps://spatialdata.scverse.org/glossary.html
Design document for SpatialDatahttps://spatialdata.scverse.org/design_doc.html
Contributing guidehttps://spatialdata.scverse.org/contributing.html
Changeloghttps://spatialdata.scverse.org/changelog.html
Referenceshttps://spatialdata.scverse.org/references.html
.md https://spatialdata.scverse.org/_sources/index.md
#https://spatialdata.scverse.org#an-open-and-universal-framework-for-processing-spatial-omics-data
repositoryhttps://github.com/scverse/spatialdata-io
documentationhttps://spatialdata.scverse.org/projects/io/en/stable/
repositoryhttps://github.com/scverse/spatialdata-plot
documentationhttps://spatialdata.scverse.org/projects/plot/en/stable/api.html
repositoryhttps://github.com/scverse/napari-spatialdata
documentationhttps://spatialdata.scverse.org/projects/napari/en/stable/notebooks/spatialdata.html
repositoryhttps://github.com/HelenaLC/SpatialData
repositoryhttps://github.com/Taylor-CCB-Group/SpatialData.js
Marconato et al., 2024https://spatialdata.scverse.org/references.html#id4
#1077https://github.com/scverse/spatialdata/issues/1064
dask issuehttps://github.com/dask/dask/issues/12193
websitehttps://scverse.org
governancehttps://scverse.org/about/roles
NumFOCUShttps://numfocus.org/
donationhttps://numfocus.org/donate-to-scverse
https://numfocus.org/project/scverse
Installationhttps://spatialdata.scverse.org/installation.html
SpatialData User Guidehttps://spatialdata.scverse.org/user_guide.html
Tutorialshttps://spatialdata.scverse.org/tutorials/notebooks/notebooks.html
APIhttps://spatialdata.scverse.org/api.html
Spatial omics datasetshttps://spatialdata.scverse.org/tutorials/notebooks/datasets/README.html
Design document for SpatialDatahttps://spatialdata.scverse.org/design_doc.html
Contributing guidehttps://spatialdata.scverse.org/contributing.html
next Installation https://spatialdata.scverse.org/installation.html

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