Metadata-Version: 2.1
Name: spatialdata
Version: 0.0.6
Summary: Spatial data format.
Project-URL: Documentation, https://spatialdata.readthedocs.io/
Project-URL: Source, https://github.com/scverse/spatialdata.git
Project-URL: Home-page, https://github.com/scverse/spatialdata.git
Author: scverse
Maintainer-email: scverse <giov.pll@gmail.com>
License: BSD 3-Clause License
        
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License-File: LICENSE
Requires-Python: >=3.9
Requires-Dist: anndata>=0.9.1
Requires-Dist: dask-image
Requires-Dist: geopandas
Requires-Dist: multiscale-spatial-image>=0.11.2
Requires-Dist: networkx
Requires-Dist: numpy
Requires-Dist: ome-zarr>=0.7.0
Requires-Dist: pyarrow
Requires-Dist: pygeos
Requires-Dist: rich
Requires-Dist: shapely>=2.0.1
Requires-Dist: spatial-image>=0.3.0
Requires-Dist: tqdm
Requires-Dist: typing-extensions>=4.0.0
Requires-Dist: xarray
Requires-Dist: xarray-schema
Requires-Dist: xarray-spatial>=0.3.5
Requires-Dist: zarr
Provides-Extra: dev
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Provides-Extra: extra
Requires-Dist: napari-spatialdata; extra == 'extra'
Requires-Dist: spatialdata-io; extra == 'extra'
Requires-Dist: spatialdata-plot; extra == 'extra'
Provides-Extra: test
Requires-Dist: pytest; extra == 'test'
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Provides-Extra: torch
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Description-Content-Type: text/markdown

# In review ⚠

-   **The library is currently under review.** We expect there to be changes as the community provides feedback.
-   To get involved in the discussion you are welcome to join our Zulip workspace and/or our community meetings every second week; [more info here](https://imagesc.zulipchat.com/#narrow/stream/329057-scverse/topic/SpatialData.20meetings).
-   Links to the OME-NGFF specification: [0.4](https://ngff.openmicroscopy.org/latest/), [0.5-dev (tables)](https://github.com/ome/ngff/pull/64), [0.5-dev (transformations and coordinate systems)](https://github.com/ome/ngff/pull/138)

# spatialdata

[![Tests][badge-tests]][link-tests]
[![pre-commit.ci status](https://results.pre-commit.ci/badge/github/scverse/spatialdata/main.svg)](https://results.pre-commit.ci/latest/github/scverse/spatialdata/main)
[![codecov](https://codecov.io/gh/scverse/spatialdata/branch/main/graph/badge.svg?token=X19DRSIMCU)](https://codecov.io/gh/scverse/spatialdata)
[![DOI](https://zenodo.org/badge/487366481.svg)](https://zenodo.org/badge/latestdoi/487366481)

<img src='https://user-images.githubusercontent.com/1120672/236395765-2a4fc420-c7fb-4937-8a54-5036adc87760.png'/>

## Getting started

Please refer to the [documentation][link-docs]. In particular:

-   [API documentation][link-api].
-   [Design doc][link-design-doc].
-   [Example notebooks][link-notebooks].

## Installation

Check out the docs for more complete installation instructions. To get started with the "batteries included" installation, you can install via pip:

```bash
pip install "spatialdata[extra]"
```

## Contact

For questions and help requests, you can reach out in the [scverse discourse][scverse-discourse].
If you found a bug, please use the [issue tracker][issue-tracker].

## Citation

[L Marconato*, G Palla*, KA Yamauchi*, I Virshup*, E Heidari, T Treis, M Toth, R Shrestha, H Vöhringer, W Huber, M Gerstung, J Moore, FJ Theis, O Stegle, bioRxiv, 2023](https://www.biorxiv.org/content/10.1101/2023.05.05.539647v1). \* = equal contribution

<!-- Links -->

[scverse-discourse]: https://discourse.scverse.org/
[issue-tracker]: https://github.com/scverse/spatialdata/issues
[changelog]: https://spatialdata.readthedocs.io/latest/changelog.html
[design doc]: https://scverse-spatialdata.readthedocs.io/en/latest/design_doc.html
[link-docs]: https://spatialdata.scverse.org/en/latest/
[link-api]: https://spatialdata.scverse.org/en/latest/api.html
[link-design-doc]: https://spatialdata.scverse.org/en/latest/design_doc.html
[link-notebooks]: https://spatialdata.scverse.org/en/latest/tutorials/notebooks/notebooks.html
[badge-tests]: https://github.com/scverse/spatialdata/actions/workflows/test_and_deploy.yaml/badge.svg
[link-tests]: https://github.com/scverse/spatialdata/actions/workflows/test_and_deplot.yaml
