Vitessce

Patch Changes

- Redirect to beta-xr.vitessce.io (`docs`) ([1825](https://github.com/vitessce/vitessce/pull/1825))

- Add webpack plugin for docusaurus site to support importing from zarrita/storage. (`docs`) ([1819](https://github.com/vitessce/vitessce/pull/1819))

Patch Changes

- Add support for Zarr ZipFileStores for AnnData file types. (`vitessce/constants-internal`, `vitessce/zarr-utils`, `vitessce/zarr`) ([1810](https://github.com/vitessce/vitessce/pull/1810))

- Add sampleSets and sampleEdges data types, with file types for CSV and AnnData, respectively. (`vitessce/constants-internal`, `vitessce/zarr`, `vitessce/csv`, `vitessce/schemas`) ([1791](https://github.com/vitessce/vitessce/pull/1791))

- Support featureLabels data type in spatialBeta legend. Add Maynard 2021 Visium example config. (`vitessce/spatial-beta`, `vitessce/constants-internal`, `vitessce/example-configs`, `vitessce/legend`, `vitessce/vit-s`) ([1815](https://github.com/vitessce/vitessce/pull/1815))

Patch Changes

- Make light theme un-selected color lighter. (`vitessce/utils`) ([1814](https://github.com/vitessce/vitessce/pull/1814))

- Export useCoordination from main vitessce package. Implement remountOnUidChange prop. (`vitessce/all`, `vitessce/vit-s`) ([1812](https://github.com/vitessce/vitessce/pull/1812))

Patch Changes

- Update light2 theme styles to use border rather than grid background. (`vitessce/vit-s`, `docs`) ([1809](https://github.com/vitessce/vitessce/pull/1809))

- Add 'light2' theme in which views have a white background. (`vitessce/layer-controller-beta`, `vitessce/genomic-profiles`, `vitessce/spatial-utils`, `vitessce/utils`, `vitessce/vit-s`, `vitessce/vega`, `vitessce/gl`, `demo`) ([1800](https://github.com/vitessce/vitessce/pull/1800))

- Do not rely on a higlass server to load chromosome sizes. (`vitessce/genomic-profiles`) ([1797](https://github.com/vitessce/vitessce/pull/1797))

- Implement violin plot via D3 (rather than Vega-Lite). (`vitessce/statistical-plots`) ([1440](https://github.com/vitessce/vitessce/pull/1440))

- Add Salcher et al., Cancer Cell 2022 demo config. (`vitessce/example-configs`) ([1807](https://github.com/vitessce/vitessce/pull/1807))

- Add Lake et al. 2023 config. Fix y-axis min for violin plot. (`vitessce/statistical-plots`, `vitessce/example-configs`) ([1790](https://github.com/vitessce/vitessce/pull/1790))

- Support loading AnnData.obs columns as an obsFeatureMatrix data type. (`vitessce/statistical-plots`, `vitessce/zarr`, `vitessce/schemas`) ([1806](https://github.com/vitessce/vitessce/pull/1806))

- Use built-in Object.fromEntries. (`vitessce/spatial-utils`, `vitessce/utils`, `vitessce/schemas`, `vitessce/config`, `vitessce/vit-s`, `vitessce/gl`) ([1808](https://github.com/vitessce/vitessce/pull/1808))

Patch Changes

- Fix circular dependencies between vitessce/utils and vitessce/sets-utils. (`vitessce/utils`, `vitessce/sets-utils`) ([1787](https://github.com/vitessce/vitessce/pull/1787))

Patch Changes

- Prevent URLs from being included in download dropdown for Zarr file types. (`vitessce/spatial`, `vitessce/zarr`, `vitessce/vit-s`) ([1759](https://github.com/vitessce/vitessce/pull/1759))

- SpatialData file type. (`vitessce/schemas`) ([1728](https://github.com/vitessce/vitessce/pull/1728))

- Support bitmask segmentations with gaps and irregular orderings. Enable usage of JSON-based Zarr stores in demos for tests. (`vitessce/layer-controller-beta`, `vitessce/spatial-beta`, `vitessce/ome-tiff`, `vitessce/spatial-utils`, `vitessce/constants-internal`, `vitessce/image-utils`, `vitessce/utils`, `vitessce/json`, `vitessce/zarr`, `vitessce/csv`, `vitessce/all`, `vitessce/example-configs`, `vitessce/schemas`, `vitessce/config`, `vitessce/vit-s`, `vitessce/gl`) ([1758](https://github.com/vitessce/vitessce/pull/1758))

- Fix volume control text sizing bug in layerController. (`vitessce/layer-controller`) ([1746](https://github.com/vitessce/vitessce/pull/1746))