https://github.com/helenalc/spatialdata
https://github.com/helenalc/spatialdata
Last synced: 3 months ago
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- Host: GitHub
- URL: https://github.com/helenalc/spatialdata
- Owner: HelenaLC
- Created: 2023-04-27T12:14:19.000Z (about 3 years ago)
- Default Branch: main
- Last Pushed: 2025-02-28T11:16:59.000Z (over 1 year ago)
- Last Synced: 2025-03-23T20:36:53.470Z (about 1 year ago)
- Language: HTML
- Size: 175 MB
- Stars: 17
- Watchers: 4
- Forks: 7
- Open Issues: 17
-
Metadata Files:
- Readme: README.md
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README
# `SpatialData`
> for a demo of the class, see the [vignette](https://htmlpreview.github.io/?https://github.com/HelenaLC/SpatialData/blob/main/vignettes/SpatialData.html)
> for visualization capabilites, see [`SpatialData.plot`](https://github.com/HelenaLC/SpatialData.plot)
> for data reading/writing and examples, see [`SpatialData.data`](https://github.com/HelenaLC/SpatialData.data)
# Introduction
`SpatialData` provides an interface to Python's `SpatialData`, and currently includes:
- reticulate-based use of `spatialdata-io` for reading of manufacturer data and writing to .zarr
- on-disk representation of images/labels as `ZarrArray`s (`Rarr`) and shapes/points as `arrow` objects
- method drafts for visualization and coordinate system handling
In addition, *scverse* data examples have been made available through
Bioconductor's NSF OSN bucket, are accessible from within R, and `BiocFileCache`d;
there's also an interface to aligning data into a common (identity) space.
# Installation
```
BiocManager::install("HelenaLC/SpatialData")
```