Vitessce

Patch Changes

- Fix bug when loading shapes.parquet files from RPC-based zarr stores in vitessce-python. (`vitessce/spatial-zarr`) ([2013](https://github.com/vitessce/vitessce/pull/2013))

Patch Changes

- Molecular observations now have tooltips when hovered over. (`vitessce/spatial`) ([1998](https://github.com/vitessce/vitessce/pull/1998))

- Added support for mapping ensemble gene ids to gene symbols. (`vitessce/feature-list`, `vitessce/heatmap`, `vitessce/tooltip`, `vitessce/vit-s`) ([1970](https://github.com/vitessce/vitessce/pull/1970))

- Extracted abstract loaders and errors from core vit-s package to eliminate circular dependencies. Extracted spatial zarr utils to avoid pulling in spatial subdependencies when only concerned with basic zarr loading functionalities. (`vitessce/abstract`, `vitessce/ome-tiff`, `vitessce/json`, `vitessce/zarr`, `vitessce/spatial-zarr`, `vitessce/csv`, `vitessce/glb`, `vitessce`, `vitessce/all`, `vitessce/example-plugins`, `vitessce/vit-s`) ([2006](https://github.com/vitessce/vitessce/pull/2006))

- Add linkController view type. Update state hooks in vit-s subpackage to set the mostRecentConfigSource value. (`vitessce/link-controller`) ([1933](https://github.com/vitessce/vitessce/pull/1933))

- Addressed accessibility issues with icons (`vitessce/obs-sets-manager`, `vitessce/scatterplot`) ([2004](https://github.com/vitessce/vitessce/pull/2004))

Patch Changes

- Fix tooltips in segmentations without locations in spatial layer (`vitessce/spatial`) ([1982](https://github.com/vitessce/vitessce/pull/1982))

Patch Changes

- Added support to map channelNames to channelIndices provided via SpatialTargetC (`vitessce/spatial-beta`) ([1971](https://github.com/vitessce/vitessce/pull/1971))

- Export usePageModeView from main vitessce package. (`vitessce/all`) ([1986](https://github.com/vitessce/vitessce/pull/1986))

- Add Spatial Atlas example config. (`vitessce/example-configs`) ([1985](https://github.com/vitessce/vitessce/pull/1985))

Minor Changes

- Add NaN percentage to legend (`vitessce/legend`, `vitessce/scatterplot-embedding`, `vitessce/scatterplot-gating`, `vitessce/heatmap`, `vitessce/spatial`, `vitessce/vit-s`) ([1947](https://github.com/vitessce/vitessce/pull/1947))

Patch Changes

- Fix obs index within AnnData-Zarr test fixture. (`vitessce/zarr`) ([1948](https://github.com/vitessce/vitessce/pull/1948))

- Fix scatterplot point layer z-index bug. (`vitessce/scatterplot`) ([1967](https://github.com/vitessce/vitessce/pull/1967))

- Correct x-axis label in `CellSetSizesPlot` (`vitessce/statistical-plots`) ([1949](https://github.com/vitessce/vitessce/pull/1949))

- Add biomarker-select view. Update pageMode functionality. Register default async function plugins, allow them to use queryClient. Add types related to knowledge. (`vitessce/biomarker-select`, `vitessce/constants-internal`, `vitessce/example-configs`, `vitessce/config`, `vitessce/types`, `vitessce/vit-s`) ([1889](https://github.com/vitessce/vitessce/pull/1889))

- Fix tooltips in spatialBeta polygon segmentation (`vitessce/spatial-beta`) ([1966](https://github.com/vitessce/vitessce/pull/1966))

- Update citation info. (`docs`) ([1959](https://github.com/vitessce/vitessce/pull/1959))

- Try removing dynamic import polyfill via a webpack ignore comment. (`vitessce/zarr`) ([1960](https://github.com/vitessce/vitessce/pull/1960))

Patch Changes

- Support parquet-based spatialdata shapes for obsSpots. Incremental update to spatialdata file options schema. (`vitessce/zarr`, `vitessce/schemas`, `vitessce/types`) ([1849](https://github.com/vitessce/vitessce/pull/1849))