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45 lines
1.5 KiB
Markdown
45 lines
1.5 KiB
Markdown
<img src="cellxgene-logo.svg" width="300">
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_an interactive explorer for single-cell transcriptomics data_
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Whether you need to visualize one thousand cells or one million, cellxgene helps you gain insight into your single-cell data.
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## features
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#### flexible selections, coloring, and differential expression of your selected sets of cells
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<img src="diffexp.gif" width="600"/>
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#### single-gene analyses (e.g. expression analysis)
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<img src="customGene.gif" width="600" />
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## quick start
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To install cellxgene you need Python 3.6+. We recommend [installing cellxgene into a conda or virtual environment.](/faq.html#how-do-i-create-a-python-environment-for-cellxgene)
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Install the package.
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``` bash
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pip install cellxgene
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```
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Download an example [anndata](https://anndata.readthedocs.io/en/latest/) file
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``` bash
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curl -o pbmc3k.h5ad https://raw.githubusercontent.com/chanzuckerberg/cellxgene/master/example-dataset/pbmc3k.h5ad
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```
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Launch cellxgene
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``` bash
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cellxgene launch pbmc3k.h5ad --open
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```
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To explore more datasets already formatted for cellxgene, see [Data](data) or
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visit [Getting Started](getting-started) to learn more about formatting your own
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data for cellxgene.
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## getting help
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We'd love to hear from you!
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For questions, suggestions, or accolades, [join the `#cellxgene-users` channel on the CZI Science Slack](https://join-cellxgene-users.herokuapp.com/) and say "hi!".
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For any errors, [report bugs on Github](https://github.com/chanzuckerberg/cellxgene/issues).
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