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Installation
SpatialData User Guide
API
SpatialData object
Input/Output
Operations
Transformations
Transformations utils
Datasets
Data Loaders
Models
Models utils
Testing utilities
Data formats (advanced)
Tutorials
Intro to SpatialData
Transformations and coordinate systems
Spatial query/subsampling
Annotating regions of interest with
napari
Use landmark annotations to align multiple -omics layers
Create SpatialData objects from scratch
Working with annotations in SpatialData
Filtering SpatialData elements with Table Queries
I. Use SpatialData with your data: the SpatialData object.
II. Use SpatialData with your data: SpatialElements and tables
Integrate/aggregate signals across spatial layers
Interchangeability between raster and vector representations
Squidpy integration
Deep learning example on image tiles
Technology focus: 10x Genomics Visium
Technology focus: MIBI-TOF
Technology focus: MERFISH
Technology focus: Visium HD
Technology focus: Visium HD (SpaceRanger 4.0)
Technology focus: Xenium
Technology focus: SpaceM
Implicit performance improvements when plotting raster data
Raster data and translations (technical topic)
Spatial omics datasets
Glossary
Design document for
SpatialData
Contributing guide
Changelog
References
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