Cellxgene-census

What's Changed
Updated package to use `tiledbsoma` version [`1.0.0rc4`](https://github.com/single-cell-data/TileDB-SOMA/releases/tag/1.0.0rc4). No significant changes to this package.

* [R] CellCensus package MVP by mlin in https://github.com/chanzuckerberg/cell-census/pull/206
* rename CI workflows by mlin in https://github.com/chanzuckerberg/cell-census/pull/232
* fix presence matrix wrong shape by ebezzi in https://github.com/chanzuckerberg/cell-census/pull/236
* rerun notebooks for census build 2023-02-28 by ebezzi in https://github.com/chanzuckerberg/cell-census/pull/234
* Change docstrings to use Google conventions by ebezzi in https://github.com/chanzuckerberg/cell-census/pull/233
* R docs by ebezzi in https://github.com/chanzuckerberg/cell-census/pull/226
* refactor ExperimentBuilder and validator for improved validator isolation by bkmartinjr in https://github.com/chanzuckerberg/cell-census/pull/237
* update to tiledbsoma 1.0.0rc4 by bkmartinjr in https://github.com/chanzuckerberg/cell-census/pull/239

New Contributors
* mlin made their first contribution in https://github.com/chanzuckerberg/cell-census/pull/206

**Full Changelog**: https://github.com/chanzuckerberg/cell-census/compare/v0.8.0...v0.9.0

What's Changed
Update to `tiledbsoma` version `1.0.0rc2`. No major changes to the `cell-census` package.

* Additional validation checks by Bento007 in https://github.com/chanzuckerberg/cell-census/pull/204
* enable duplicates for performance by bkmartinjr in https://github.com/chanzuckerberg/cell-census/pull/219
* Updates Readme by pablo-gar in https://github.com/chanzuckerberg/cell-census/pull/212
* Notebook documentation by ebezzi in https://github.com/chanzuckerberg/cell-census/pull/218
* Update python package and builder to tiledbsoma 1.0.0rc2 by bkmartinjr in https://github.com/chanzuckerberg/cell-census/pull/227


**Full Changelog**: https://github.com/chanzuckerberg/cell-census/compare/v0.7.0...v0.8.0

Breaking Changes
* cell_census Python package updated to utilize `tiledbsoma` 1.0.0rc1, which includes a small breaking change to `SOMATileDBContext` timestamp handling.

Known issues
* there is an errant debugging message which will be printed upon calling `cell_census.open_soma()`. It can be safely ignored.

What's Changed
* docs: Clarifies text for Feature Dataset Presence Matrix, rename schema file by pablo-gar in https://github.com/chanzuckerberg/cell-census/pull/211
* Docsite by ebezzi in https://github.com/chanzuckerberg/cell-census/pull/199
* feature: update builder tiledbsoma release by atolopko-czi in https://github.com/chanzuckerberg/cell-census/pull/154
* Add SOMA page and links by ebezzi in https://github.com/chanzuckerberg/cell-census/pull/217
* docs: fix header level of notebooks by pablo-gar in https://github.com/chanzuckerberg/cell-census/pull/224
* add tests for builder arg parser by Bento007 in https://github.com/chanzuckerberg/cell-census/pull/200
* Python package: update tiledbsoma dep to 1.0.0rc1 by bkmartinjr in https://github.com/chanzuckerberg/cell-census/pull/225


**Full Changelog**: https://github.com/chanzuckerberg/cell-census/compare/v0.6.0...v0.7.0

Breaking Changes
* Updated to `tiledbsoma` version 1.0rc0

Improvements
* Fixed performance regression in `open_soma`

What's Changed
* Add codecov github action by Bento007 in https://github.com/chanzuckerberg/cell-census/pull/178
* API cleanup by bkmartinjr in https://github.com/chanzuckerberg/cell-census/pull/180
* Add validate to builder unit-test by Bento007 in https://github.com/chanzuckerberg/cell-census/pull/147
* Allow default context to be use in open_soma by Bento007 in https://github.com/chanzuckerberg/cell-census/pull/203
* update python package to tiledbsoma 1.0rc0 by bkmartinjr in https://github.com/chanzuckerberg/cell-census/pull/209


**Full Changelog**: https://github.com/chanzuckerberg/cell-census/compare/v0.5.0...v0.6.0

What's Changed
No major changes. Update SOMA dependency to `tiledbsoma==0.5.0a11`.

* feature: builder census summary tweaks by atolopko-czi in https://github.com/chanzuckerberg/cell-census/pull/171
* remove workaround for portal API gateway error bug by bkmartinjr in https://github.com/chanzuckerberg/cell-census/pull/167
* update to mypy 1.0 by bkmartinjr in https://github.com/chanzuckerberg/cell-census/pull/169
* lint in census_summary by bkmartinjr in https://github.com/chanzuckerberg/cell-census/pull/175
* update cell_census python package dependency tiledbsoma 0.5.0a11 by bkmartinjr in https://github.com/chanzuckerberg/cell-census/pull/176


**Full Changelog**: https://github.com/chanzuckerberg/cell-census/compare/v0.4.0...v0.5.0

Breaking Changes
* `open_soma` returns a handle which must be closed upon completion of census use. It is also a context operator, allowing the use of the `with` statement.
* `get_anndata` coords arguments take a single coordinate point list, slice or int, rather than a per-dimension tuple, as these dataframes are always one-dimensional, and indexed by their `soma_joinid`
* package now imports `tiledbsoma==0.5.0a10` which has several breaking API changes.

Enhancements
* Python 3.7 support

What's Changed
* chore: Update license copyright year by atolopko-czi in https://github.com/chanzuckerberg/cell-census/pull/118
* API cleanup by bkmartinjr in https://github.com/chanzuckerberg/cell-census/pull/117
* Coords param change for get_anndata by bkmartinjr in https://github.com/chanzuckerberg/cell-census/pull/122
* Add Python 3.7 support by bkmartinjr in https://github.com/chanzuckerberg/cell-census/pull/121
* update installation docs to reflect publication of package on PyPi by bkmartinjr in https://github.com/chanzuckerberg/cell-census/pull/153
* Port cell_census and notebooks to tiledbsoma 0.5.0a10 by bkmartinjr in https://github.com/chanzuckerberg/cell-census/pull/132

New Contributors
* ebezzi made their first contribution in https://github.com/chanzuckerberg/cell-census/pull/76
* Bento007 made their first contribution in https://github.com/chanzuckerberg/cell-census/pull/115
* metakuni made their first contribution in https://github.com/chanzuckerberg/cell-census/pull/127

**Full Changelog**: https://github.com/chanzuckerberg/cell-census/compare/v0.3.0...v0.4.0