R package `cellxgene.census` V1 is out
The Census team is pleased to announce the release of the R package `cellxgene.census`.
This has been long coming since our Python release back in May. Now, from R, computational biologists can access the Census data which is the largest standardized aggregation of single-cell data, composed of >30M cells and >60K genes.
With `cellxgene.census` in a few seconds users can access any slice of Census data using cell or gene filters across hundreds of datasets. The data can be fetched in an iterative fashion for bigger-than-memory slices of data, or quickly exported to basic R structures, and `Seurat` or `SingleCellExperiment` for downstream analysis.
Make sure to checkout the R docs from our doc-site, links can be found in the [github repo chanzuckerberg/cellxgene-census](https://github.com/chanzuckerberg/cellxgene-census/tree/main).
Additions
* [builder] add normalization layer and computed axes statistics by bkmartinjr in https://github.com/chanzuckerberg/cellxgene-census/pull/612
* [builder] add dataset_version_id by bkmartinjr in https://github.com/chanzuckerberg/cellxgene-census/pull/618
* [builder] implement worker count limit by bkmartinjr in https://github.com/chanzuckerberg/cellxgene-census/pull/673
* [python] PCA demo notebook by bkmartinjr in https://github.com/chanzuckerberg/cellxgene-census/pull/580
* [r] Add `get_single_cell_experiment` by pablo-gar in https://github.com/chanzuckerberg/cellxgene-census/pull/640
Fixes
* [docs] cell guide button beta tag alignment by ebezzi in https://github.com/chanzuckerberg/cellxgene-census/pull/657
* [builder] fix merge error in schema doc by bkmartinjr in https://github.com/chanzuckerberg/cellxgene-census/pull/662
* [docs] Add mean_variance notebook symlink by ebezzi in https://github.com/chanzuckerberg/cellxgene-census/pull/677
* [docs] Fix number of unique cells for human in doc site by pablo-gar in https://github.com/chanzuckerberg/cellxgene-census/pull/678
* [r] restore vignettes to docsite (in static HTML form) by mlin in https://github.com/chanzuckerberg/cellxgene-census/pull/583
* [r] Fix copying R docs, doc-site CI by pablo-gar in https://github.com/chanzuckerberg/cellxgene-census/pull/681
What's Changed
* [builder] bump Census build minimum disk space requirement to 1.8TiB by bkmartinjr in https://github.com/chanzuckerberg/cellxgene-census/pull/661
* [python] bound pytorch memory usage by atolopko-czi in https://github.com/chanzuckerberg/cellxgene-census/pull/654
* [docs] Fetch docsite version number from git tags by ebezzi in https://github.com/chanzuckerberg/cellxgene-census/pull/675
* [docs] fetch-depth: 0 for docsite build by ebezzi in https://github.com/chanzuckerberg/cellxgene-census/pull/679
* [r] Audit r vignettes by pablo-gar in https://github.com/chanzuckerberg/cellxgene-census/pull/686
* [r] Update R docs and doc-site by pablo-gar in https://github.com/chanzuckerberg/cellxgene-census/pull/684
* [r] run R tests with both release and latest versions of tiledbsoma by mlin in https://github.com/chanzuckerberg/cellxgene-census/pull/691
* [r] Change R Dependencies by pablo-gar in https://github.com/chanzuckerberg/cellxgene-census/pull/693
* [r] Update DESCRIPTION to remove windows support from R by pablo-gar in https://github.com/chanzuckerberg/cellxgene-census/pull/692
* Suggesting very minor edits to comp_bio_data_integration.Rmd by eddelbuettel in https://github.com/chanzuckerberg/cellxgene-census/pull/694
* [r] Update to version 1.5.0 and rebuild doc-site by pablo-gar in https://github.com/chanzuckerberg/cellxgene-census/pull/695
New Contributors
* eddelbuettel made their first contribution in https://github.com/chanzuckerberg/cellxgene-census/pull/694
**Full Changelog**: https://github.com/chanzuckerberg/cellxgene-census/compare/v1.4.0...v1.5.0