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Co-Authored-By: Justin Kiggins <justin.kiggins@chanzuckerberg.com>
This commit is contained in:
Severiano Badajoz
2019-07-25 16:52:38 -07:00
committed by GitHub
parent 6a86883c2d
commit 9eb8185e82
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[![DOI](https://zenodo.org/badge/105615409.svg)](https://zenodo.org/badge/latestdoi/105615409)
[![PyPI](https://img.shields.io/pypi/v/cellxgene)](https://pypi.org/project/cellxgene/)
[![PyPI - Downloads](https://img.shields.io/pypi/dm/cellxgene)](https://pypistats.org/packages/cellxgene)
[![GitHub last commit](https://img.shields.io/github/last-commit/chanzuckerberg/cellxgene)](https://github.com/chanzuckerberg/cellxgene/pulse)
_cellxgene_ (pronounced "sell-by-jean") is an interactive data explorer for single-cell transcriptomics datasets, such as those coming from the [Human Cell Atlas](https://humancellatlas.org). Leveraging modern web development techniques to enable fast visualizations of at least 1 million cells, we hope to enable biologists and computational researchers to explore their data, and to demonstrate general, scalable, and reusable patterns for scientific data visualization.
<img src="https://raw.githubusercontent.com/chanzuckerberg/cellxgene/master/docs/cellxgene-demo-1.gif" width="200" height="200" hspace="30"><img src="https://raw.githubusercontent.com/chanzuckerberg/cellxgene/master/docs/cellxgene-demo-2.gif" width="200" height="200" hspace="30"><img src="https://raw.githubusercontent.com/chanzuckerberg/cellxgene/master/docs/cellxgene-demo-3.gif" width="200" height="200" hspace="30">
@@ -17,18 +23,20 @@ _cellxgene_ (pronounced "sell-by-jean") is an interactive data explorer for sing
To install _cellxgene_ you need Python 3.6+. We recommend [installing _cellxgene_ into a conda or virtual environment.](https://chanzuckerberg.github.io/cellxgene/faq.html#how-do-i-create-a-python-36-environment-for-cellxgene)
Install the package.
``` bash
```bash
pip install cellxgene
```
Download an example [anndata](https://anndata.readthedocs.io/en/latest/) file
``` bash
```bash
curl -o pbmc3k.h5ad https://raw.githubusercontent.com/chanzuckerberg/cellxgene/master/example-dataset/pbmc3k.h5ad
```
Launch _cellxgene_
``` bash
```bash
cellxgene launch pbmc3k.h5ad --open
```