Cellxgene-census

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1.1.0

tiledbsoma` upgraded to `1.2.5`. Added an experimental PyTorch data loader.

What's Changed

* [docs] Add autosummary by ebezzi in https://github.com/chanzuckerberg/cellxgene-census/pull/492
* Add Databricks install instructions to FAQ by atolopko-czi in https://github.com/chanzuckerberg/cellxgene-census/pull/488
* [docs] Fix the Census link in navbar by ebezzi in https://github.com/chanzuckerberg/cellxgene-census/pull/491
* PyTorch DataLoader by atolopko-czi in https://github.com/chanzuckerberg/cellxgene-census/pull/499
* chore: update lifecycle tags by atolopko-czi in https://github.com/chanzuckerberg/cellxgene-census/pull/509
* bump python api tiledbsoma version by atolopko-czi in https://github.com/chanzuckerberg/cellxgene-census/pull/510

**Full Changelog**: https://github.com/chanzuckerberg/cellxgene-census/compare/v1.0.2...v1.1.0

1.0.2

What's Changed

Update to `tiledbsoma=1.2.4`, which adds support for MacOS ARM64.

Change log summary:
* Bump static census version in R tests by ebezzi in https://github.com/chanzuckerberg/cellxgene-census/pull/472
* [r] update `get_presence_matrix()` and vignette to use zero-based matrix view by mlin in https://github.com/chanzuckerberg/cellxgene-census/pull/475
* add acceptance test run by atolopko-czi in https://github.com/chanzuckerberg/cellxgene-census/pull/485
* rerun notebooks for census build 2023-05-15 by atolopko-czi in https://github.com/chanzuckerberg/cellxgene-census/pull/484
* Updated gget cellxgene tutorial to reflect workflow updates [formatting corrected] by pablo-gar in https://github.com/chanzuckerberg/cellxgene-census/pull/490
* Add docsite version number from the library version by ebezzi in https://github.com/chanzuckerberg/cellxgene-census/pull/481
* pin tiledbsoma==1.2.4 by bkmartinjr in https://github.com/chanzuckerberg/cellxgene-census/pull/493


**Full Changelog**: https://github.com/chanzuckerberg/cellxgene-census/compare/v1.0.1...v1.0.2

1.0.1

What's Changed
* Enable anonymous access to S3 bucket by ebezzi in https://github.com/chanzuckerberg/cellxgene-census/pull/275


**Full Changelog**: https://github.com/chanzuckerberg/cellxgene-census/compare/v1.0.0...v1.0.1

1.0.0

What's Changed
* update python package name python demonstration notebooks by bkmartinjr in https://github.com/chanzuckerberg/cellxgene-census/pull/350
* rerun notebooks for census build 2023-04-04 by atolopko-czi in https://github.com/chanzuckerberg/cellxgene-census/pull/353
* Builder: additional workflow steps by bkmartinjr in https://github.com/chanzuckerberg/cellxgene-census/pull/351
* [r] use new SOMATileDBContext$context() accessor by mlin in https://github.com/chanzuckerberg/cellxgene-census/pull/357
* census_dataset_presence.ipynb typo fix by mlin in https://github.com/chanzuckerberg/cellxgene-census/pull/352
* readthedocs setup by ebezzi in https://github.com/chanzuckerberg/cellxgene-census/pull/335
* Miscellaneous R doc changes by ebezzi in https://github.com/chanzuckerberg/cellxgene-census/pull/338
* Miscellaneous docs updates by ebezzi in https://github.com/chanzuckerberg/cellxgene-census/pull/365
* Update documentation link in README.md by ebezzi in https://github.com/chanzuckerberg/cellxgene-census/pull/367
* Adds Census FAQ by pablo-gar in https://github.com/chanzuckerberg/cellxgene-census/pull/362
* Add plausible to sphinx and pkgdown by ebezzi in https://github.com/chanzuckerberg/cellxgene-census/pull/366
* Update examples link in README.md by ebezzi in https://github.com/chanzuckerberg/cellxgene-census/pull/368
* Editorial changes to notebook `comp_bio_data_integration_scvi.ipynb` by pablo-gar in https://github.com/chanzuckerberg/cellxgene-census/pull/370
* Editorial changes to notebook `census_axis_query.ipynb` by pablo-gar in https://github.com/chanzuckerberg/cellxgene-census/pull/371
* Editorial changes to notebook `comp_bio_census_info.ipynb` by pablo-gar in https://github.com/chanzuckerberg/cellxgene-census/pull/369
* Fix naming and links and small editorial changes of documentation. by pablo-gar in https://github.com/chanzuckerberg/cellxgene-census/pull/373
* chore: fix link to tutorials in README by pablo-gar in https://github.com/chanzuckerberg/cellxgene-census/pull/375
* refractor get_seurat, update docs and tests by pablo-gar in https://github.com/chanzuckerberg/cellxgene-census/pull/381
* [r] add remaining API demo vignettes by mlin in https://github.com/chanzuckerberg/cellxgene-census/pull/358
* Use GET /datasets endpoint for builder by ebezzi in https://github.com/chanzuckerberg/cellxgene-census/pull/378
* New documentation pages by ebezzi in https://github.com/chanzuckerberg/cellxgene-census/pull/386
* Change template for docsite to look like cellxgene by ebezzi in https://github.com/chanzuckerberg/cellxgene-census/pull/385
* fix anchors in docs by ebezzi in https://github.com/chanzuckerberg/cellxgene-census/pull/387
* Audit notebook 4 by pablo-gar in https://github.com/chanzuckerberg/cellxgene-census/pull/377
* Updates schema to 1.0 by pablo-gar in https://github.com/chanzuckerberg/cellxgene-census/pull/374
* chore: pin uberon ontology version by atolopko-czi in https://github.com/chanzuckerberg/cellxgene-census/pull/388
* Make census builder adhere to census schema 1.0 by ebezzi in https://github.com/chanzuckerberg/cellxgene-census/pull/394
* [r] revise census_query_extract.Rmd by mlin in https://github.com/chanzuckerberg/cellxgene-census/pull/393
* Stable route for release.json by ebezzi in https://github.com/chanzuckerberg/cellxgene-census/pull/409
* Miscellaneous doc fixes by ebezzi in https://github.com/chanzuckerberg/cellxgene-census/pull/413
* Fix for Mac OSX certificate issue by atolopko-czi in https://github.com/chanzuckerberg/cellxgene-census/pull/416
* bump tiledbsoma to 1.2.2 by atolopko-czi in https://github.com/chanzuckerberg/cellxgene-census/pull/419
* Modify README.md to remove pre-release status by ebezzi in https://github.com/chanzuckerberg/cellxgene-census/pull/423
* Docsite GHA workflow by ebezzi in https://github.com/chanzuckerberg/cellxgene-census/pull/422
* Add Census link to docpage navbar by ebezzi in https://github.com/chanzuckerberg/cellxgene-census/pull/408
* Add missing docs dependency by ebezzi in https://github.com/chanzuckerberg/cellxgene-census/pull/425
* Incorporates comms edits and updates links to new landing site by pablo-gar in https://github.com/chanzuckerberg/cellxgene-census/pull/421
* Fix docsite build by ebezzi in https://github.com/chanzuckerberg/cellxgene-census/pull/431
* [doc-site] Small formatting nit fixes, removes one R example in quick start by pablo-gar in https://github.com/chanzuckerberg/cellxgene-census/pull/428
* Change plausible snippet to the new docsite by ebezzi in https://github.com/chanzuckerberg/cellxgene-census/pull/432
* Change plausible snippet to the new docsite for R by ebezzi in https://github.com/chanzuckerberg/cellxgene-census/pull/434
* open_soma() alias handling changes by atolopko-czi in https://github.com/chanzuckerberg/cellxgene-census/pull/435
* Updates cell number in docsite visual by pablo-gar in https://github.com/chanzuckerberg/cellxgene-census/pull/437
* Move release.json location by ebezzi in https://github.com/chanzuckerberg/cellxgene-census/pull/443
* Docsite favicon by ebezzi in https://github.com/chanzuckerberg/cellxgene-census/pull/442
* Add tutorial for gget cellxgene module, edited by pablo-gar in https://github.com/chanzuckerberg/cellxgene-census/pull/450
* adds 'duplicate cells' notebooks by pablo-gar in https://github.com/chanzuckerberg/cellxgene-census/pull/448
* Pin tiledb version as work-around by bkmartinjr in https://github.com/chanzuckerberg/cellxgene-census/pull/454
* Incorporate comms changes by pablo-gar in https://github.com/chanzuckerberg/cellxgene-census/pull/456
* A few final edits to gget tutorial by lauraluebbert in https://github.com/chanzuckerberg/cellxgene-census/pull/451
* revert R API release.json URL by atolopko-czi in https://github.com/chanzuckerberg/cellxgene-census/pull/458
* Fix docsite version and disable searchbar by ebezzi in https://github.com/chanzuckerberg/cellxgene-census/pull/460
* update release bootstrap URL to public permalink by bkmartinjr in https://github.com/chanzuckerberg/cellxgene-census/pull/459
* Remove pre-release from README.md by ebezzi in https://github.com/chanzuckerberg/cellxgene-census/pull/462

New Contributors
* lauraluebbert made their first contribution in https://github.com/chanzuckerberg/cellxgene-census/pull/451

**Full Changelog**: https://github.com/chanzuckerberg/cellxgene-census/compare/v0.13.0...v1.0.0

1.0.0rc4

What's Changed
* revert R API release.json URL by atolopko-czi in https://github.com/chanzuckerberg/cellxgene-census/pull/458
* Fix docsite version and disable searchbar by ebezzi in https://github.com/chanzuckerberg/cellxgene-census/pull/460
* update release bootstrap URL to public permalink by bkmartinjr in https://github.com/chanzuckerberg/cellxgene-census/pull/459


**Full Changelog**: https://github.com/chanzuckerberg/cellxgene-census/compare/v1.0.0rc3...v1.0.0rc4

1.0.0rc3

What's Changed
* Add tutorial for gget cellxgene module, edited by pablo-gar in https://github.com/chanzuckerberg/cellxgene-census/pull/450
* adds 'duplicate cells' notebooks by pablo-gar in https://github.com/chanzuckerberg/cellxgene-census/pull/448
* Pin tiledb version as work-around by bkmartinjr in https://github.com/chanzuckerberg/cellxgene-census/pull/454
* Incorporate comms changes by pablo-gar in https://github.com/chanzuckerberg/cellxgene-census/pull/456
* A few final edits to gget tutorial by lauraluebbert in https://github.com/chanzuckerberg/cellxgene-census/pull/451

New Contributors
* lauraluebbert made their first contribution in https://github.com/chanzuckerberg/cellxgene-census/pull/451

**Full Changelog**: https://github.com/chanzuckerberg/cellxgene-census/compare/v1.0.0rc2...v1.0.0rc3

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