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docs: updating readme and display version for rebranding (#2550)
* docs: updating readme and display version for rebranding - CELLxGENE -> CELLxGENE Annotate - reverting __init__.py display_version back to "cellxgene" - changing page titles to "CELLxGENE | Annotate"
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@@ -7,27 +7,27 @@ _an interactive explorer for single-cell transcriptomics data_
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[](https://github.com/chanzuckerberg/cellxgene/actions?query=workflow%3A%22Compatibility+Tests%22)
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cellxgene Desktop (pronounced "cell-by-gene") is an interactive data explorer for single-cell 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.
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CZ CELLxGENE Annotate (pronounced "cell-by-gene") is an interactive data explorer for single-cell 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.
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Whether you need to visualize one thousand cells or one million, cellxgene Desktop helps you gain insight into your single-cell data.
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Whether you need to visualize one thousand cells or one million, CELLxGENE Annotate helps you gain insight into your single-cell data.
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<img src="https://github.com/chanzuckerberg/cellxgene/raw/main/docs/images/crossfilter.gif" width="350" height="200" hspace="30"><img src="https://github.com/chanzuckerberg/cellxgene/raw/main/docs/images/category-breakdown.gif" width="350" height="200" hspace="30">
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# Getting started
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### The comprehensive guide to cellxgene Desktop
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### The comprehensive guide to CZ CELLxGENE Annotate
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[The cellxgene documentation is your one-stop-shop for information about cellxgene Desktop](https://github.com/chanzuckerberg/cellxgene-documentation/blob/main/README.md)! You may be particularly interested in:
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[The CZ CELLxGENE Annotate documentation is your one-stop-shop for information about CELLxGENE Annotate](https://github.com/chanzuckerberg/cellxgene-documentation/blob/main/README.md)! You may be particularly interested in:
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- Seeing [what cellxgene Desktop can do](https://github.com/chanzuckerberg/cellxgene-documentation/blob/main/explore-data/explorer-tutorials.md)
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- Learning more about cellxgene [installation](https://github.com/chanzuckerberg/cellxgene-documentation/blob/main/desktop/install.md) and [usage](https://github.com/chanzuckerberg/cellxgene-documentation/blob/main/desktop/quick-start.md#quick-start-1)
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- [Preparing your own data](https://github.com/chanzuckerberg/cellxgene-documentation/blob/main/desktop/data-reqs.md) for use in cellxgene Desktop
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- Seeing [what Annotate can do](https://github.com/chanzuckerberg/cellxgene-documentation/blob/main/explore-data/explorer-tutorials.md)
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- Learning more about Annotate [installation](https://github.com/chanzuckerberg/cellxgene-documentation/blob/main/desktop/install.md) and [usage](https://github.com/chanzuckerberg/cellxgene-documentation/blob/main/desktop/quick-start.md#quick-start-1)
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- [Preparing your own data](https://github.com/chanzuckerberg/cellxgene-documentation/blob/main/desktop/data-reqs.md) for use in Annotate
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- Checking out [our roadmap](https://github.com/chanzuckerberg/cellxgene-documentation/blob/main/roadmap.md) for future development
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- [Contributing](https://github.com/chanzuckerberg/cellxgene-documentation/blob/main/contribute.md) to cellxgene Desktop
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- [Contributing](https://github.com/chanzuckerberg/cellxgene-documentation/blob/main/contribute.md) to Annotate
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### Quick start
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To install cellxgene Desktop you need Python 3.6+. We recommend [installing cellxgene Desktop into a conda or virtual environment.](https://github.com/chanzuckerberg/cellxgene-documentation/blob/main/desktop/install.md)
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To install CELLxGENE Annotate you need Python 3.6+. We recommend [installing Annotate into a conda or virtual environment.](https://github.com/chanzuckerberg/cellxgene-documentation/blob/main/desktop/install.md)
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Install the package.
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@@ -35,19 +35,19 @@ Install the package.
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pip install cellxgene
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```
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Launch cellxgene Desktop with an example [anndata](https://anndata.readthedocs.io/en/latest/) file
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Launch Annotate with an example [anndata](https://anndata.readthedocs.io/en/latest/) file
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```bash
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cellxgene launch https://cellxgene-example-data.czi.technology/pbmc3k.h5ad
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```
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To explore more datasets already formatted for cellxgene Desktop, check out the [Demo data](https://github.com/chanzuckerberg/cellxgene-documentation/blob/main/desktop/quick-start.md#example-datasets) or
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To explore more datasets already formatted for Annotate, check out the [Demo data](https://github.com/chanzuckerberg/cellxgene-documentation/blob/main/desktop/quick-start.md#example-datasets) or
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see [Preparing your data](https://github.com/chanzuckerberg/cellxgene-documentation/blob/main/desktop/data-reqs.md) to learn more about formatting your own
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data for cellxgene Desktop.
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data for CELLxGENE Annotate.
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### Supported browsers
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cellxgene Desktop currently supports the following browsers:
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CELLxGENE Annotate currently supports the following browsers:
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- Google Chrome 61+
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- Edge 15+
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@@ -62,11 +62,11 @@ For questions, suggestions, or accolades, [join the `#cellxgene-users` channel o
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For any errors, [report bugs on Github](https://github.com/chanzuckerberg/cellxgene/issues).
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# Developing with cellxgene Desktop
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# Developing with CZ CELLxGENE Annotate
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### Contributing
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We warmly welcome contributions from the community! Please see our [contributing guide](https://github.com/chanzuckerberg/cellxgene-documentation/blob/main/contribute.md) and don't hesitate to open an issue or send a pull request to improve cellxgene Desktop. Please see the [dev_docs](https://github.com/chanzuckerberg/cellxgene/tree/main/dev_docs) for pull request suggestions, unit test details, local documentation preview, and other development specifics.
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We warmly welcome contributions from the community! Please see our [contributing guide](https://github.com/chanzuckerberg/cellxgene-documentation/blob/main/contribute.md) and don't hesitate to open an issue or send a pull request to improve CELLxGENE Annotate. Please see the [dev_docs](https://github.com/chanzuckerberg/cellxgene/tree/main/dev_docs) for pull request suggestions, unit test details, local documentation preview, and other development specifics.
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This project adheres to the Contributor Covenant [code of conduct](https://github.com/chanzuckerberg/.github/blob/master/CODE_OF_CONDUCT.md). By participating, you are expected to uphold this code. Please report unacceptable behavior to opensource@chanzuckerberg.com.
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@@ -77,11 +77,11 @@ As such, we encourage other scientific tool builders in academia or industry to
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this project. All code is freely available for reuse under the [MIT license](https://opensource.org/licenses/MIT).
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Before extending cellxgene, we encourage you to reach out to us with ideas or questions. It might be possible that an
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Before extending CELLxGENE Annotate, we encourage you to reach out to us with ideas or questions. It might be possible that an
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extension could be directly contributed, which would make it available for a wider audience, or that it's on our
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[roadmap](https://github.com/chanzuckerberg/cellxgene-documentation/blob/main/roadmap.md) and under active development.
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See the [cellxgene extensions](https://github.com/chanzuckerberg/cellxgene-documentation/blob/main/community-extensions.md) section of our documentation for examples of community use and cellxgene extensions.
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See the [CELLxGENE extensions](https://github.com/chanzuckerberg/cellxgene-documentation/blob/main/community-extensions.md) section of our documentation for examples of community use and CELLxGENE extensions.
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### Security
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+1
-1
@@ -3,7 +3,7 @@
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<head>
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<meta charset="utf-8" />
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<meta name="viewport" content="width=device-width, initial-scale=1" />
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<title>cell×gene</title>
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<title>CELL×GENE | Annotate</title>
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<style>
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html,
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body,
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@@ -3,7 +3,7 @@
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<head>
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<meta charset="utf-8" />
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<meta name="viewport" content="width=device-width, initial-scale=1" />
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<title>cell×gene</title>
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<title>CELL×GENE | Annotate</title>
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<style>
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html,
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body,
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@@ -41,7 +41,7 @@ class App extends React.Component {
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const { loading, error, graphRenderCounter } = this.props;
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return (
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<Container>
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<Helmet title="cellxgene" />
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<Helmet title="CELL×GENE | Annotate" />
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{loading ? (
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<div
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style={{
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