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Releases: euxhenh/cellar

1.12

10 Jul 21:18
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Minor bug fixes.

1.11

24 Apr 17:30
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  • Added support for .h5 files.
  • Allowing spatial information for CODEX to be stored in anndata via x, y coordinates or spatial_idx key.
  • Added a missing dependency for seurat_v3.
  • Switched the order of selecting highly variable genes and log-transforming the data for flavors other than seurat_v3.

1.10

31 Mar 19:49
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  • Migrated Cellar to dash 2.x and dash-bootstrap-components 1.x. These new versions introduced several breaking changes and the UI now uses a bigger font.
  • Allowed for arbitrary directory names when uploading cellranger tar.gz files.
  • Switched to conda based bioconductor; now using conda's version of SingleR.
  • Updated installation instructions.

1.00

22 Feb 23:26
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This marks the first release of Cellar. Cellar is an interactive tool for analyzing single-cell omics data and it supports several data types including, but not limited to scRNA-seq, scATAC-seq, CODEX, SNARE-seq, sciRNA-seq, Visium. It supports preprocessing, dimensionality reduction, clustering, DE gene testing, enrichment analysis, cluster and gene visualization modules, projection to spatial tiles, label transfer, and semi-supervised clustering among others.

Cellar is entirely built in Python using the Dash framework. It relies on several open-source packages such as: scanpy, scikit-learn, anndata, pandas, numpy, leidenalg, and more.

Cellar can be used as a standalone app by pulling the docker image at euxhen/cellar or by using our demo web server (for a link see the main page). Full documentation can be found at https://euxhenh.github.io/cellar/