diff --git a/README.md b/README.md index 5cd6694cc..50bd90069 100644 --- a/README.md +++ b/README.md @@ -6,7 +6,7 @@ [![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) [![documentation badge](https://readthedocs.org/projects/scverse-spatialdata/badge/?version=latest)](https://spatialdata.scverse.org/en/latest/) -[![DOI](https://zenodo.org/badge/487366481.svg)](https://zenodo.org/badge/latestdoi/487366481) +[![DOI](https://zenodo.org/badge/DOI/10.5281/zenodo.20056407.svg)](https://doi.org/10.5281/zenodo.20056407) [![Downloads](https://static.pepy.tech/badge/spatialdata)](https://pepy.tech/project/spatialdata) [![Release](https://github.com/scverse/spatialdata/actions/workflows/release.yaml/badge.svg?event=release)](https://github.com/scverse/spatialdata/actions/workflows/release.yaml) [![Documentation][badge-pypi]][link-pypi] @@ -15,11 +15,15 @@ [badge-pypi]: https://badge.fury.io/py/spatialdata.svg [link-pypi]: https://pypi.org/project/spatialdata/ -SpatialData is a data framework that comprises a FAIR storage format and a collection of python libraries for performant access, alignment, and processing of uni- and multi-modal spatial omics datasets. This repository contains the core spatialdata library. See the links below to learn more about other packages in the SpatialData ecosystem. +SpatialData is a data framework, a schema and a serialization format for uni- and multi-modal spatial omics datasets. It is supported by a growing suite of software libraries for performant access, manipulation and analysis in multiple languages, including Python, R and JavaScript. + +This repository contains the core spatialdata library. See the links below to learn more about other packages in the SpatialData ecosystem. - [spatialdata-io](https://github.com/scverse/spatialdata-io): load data from common spatial omics technologies into spatialdata. - [spatialdata-plot](https://github.com/scverse/spatialdata-plot): Static plotting library for spatialdata. - [napari-spatialdata](https://github.com/scverse/napari-spatialdata): napari plugin for interactive exploration and annotation of spatial data. +- [SpatialData (R)](https://github.com/HelenaLC/SpatialData): R implementation of the SpatialData framework. +- [SpatialData.js](https://github.com/Taylor-CCB-Group/SpatialData.js): JavaScript/TypeScript implementation of the SpatialData framework. [//]: # "numfocus-fiscal-sponsor-attribution" diff --git a/docs/index.md b/docs/index.md index 8e614fa01..4b21c6ff7 100644 --- a/docs/index.md +++ b/docs/index.md @@ -6,11 +6,15 @@ # An open and universal framework for processing spatial omics data. -SpatialData is a data framework that comprises a FAIR storage format and a collection of python libraries for performant access, alignment, and processing of uni- and multi-modal spatial omics datasets. This page provides documentation on how to install, use, and extend the core `spatialdata` library. See the links below to learn more about other packages in the SpatialData ecosystem. +SpatialData is a data framework, a schema and a serialization format for uni- and multi-modal spatial omics datasets. It is supported by a growing suite of software libraries for performant access, manipulation and analysis in multiple languages, including Python, R and JavaScript. + +This page provides documentation on how to install, use, and extend the core `spatialdata` library. See the links below to learn more about other packages in the SpatialData ecosystem. - `spatialdata-io`: load data from common spatial omics technologies into `spatialdata` ([repository][spatialdata-io-repo], [documentation][spatialdata-io-docs]). - `spatialdata-plot`: Static plotting library for `spatialdata` ([repository][spatialdata-plot-repo], [documentation][spatialdata-plot-docs]). - `napari-spatialdata-repo`: napari plugin for interactive exploration and annotation of `spatialdata` ([repository][napari-spatialdata-repo], [documentation][napari-spatialdata-docs]). +- `SpatialData` (R): R implementation of the SpatialData framework ([repository][spatialdata-r-repo]). +- `SpatialData.js`: JavaScript/TypeScript implementation of the SpatialData framework ([repository][spatialdata-js-repo]). Please see our publication {cite}`marconatoSpatialDataOpenUniversal2024` for citation and to learn more. @@ -119,3 +123,5 @@ references.md [napari-spatialdata-docs]: https://spatialdata.scverse.org/projects/napari/en/stable/notebooks/spatialdata.html [spatialdata-io-docs]: https://spatialdata.scverse.org/projects/io/en/stable/ [spatialdata-plot-docs]: https://spatialdata.scverse.org/projects/plot/en/stable/api.html +[spatialdata-r-repo]: https://github.com/HelenaLC/SpatialData +[spatialdata-js-repo]: https://github.com/Taylor-CCB-Group/SpatialData.js