diff --git a/docs/_site/index.html b/docs/_site/index.html index 18d2548e..0c2d6eb2 100644 --- a/docs/_site/index.html +++ b/docs/_site/index.html @@ -16,10 +16,10 @@ +{"publisher":{"@type":"Organization","logo":{"@type":"ImageObject","url":"https://chanzuckerberg.github.io/cellxgene/cellxgene-logo.png"}},"url":"https://chanzuckerberg.github.io/cellxgene/","name":"cellxgene","headline":"Index","description":"An interactive explorer for single-cell transcriptomics data","@type":"WebSite","@context":"https://schema.org"} - + diff --git a/docs/_site/posts/annotations.html b/docs/_site/posts/annotations.html index dee480ce..cbf5b5e2 100644 --- a/docs/_site/posts/annotations.html +++ b/docs/_site/posts/annotations.html @@ -16,10 +16,10 @@ +{"publisher":{"@type":"Organization","logo":{"@type":"ImageObject","url":"https://chanzuckerberg.github.io/cellxgene/cellxgene-logo.png"}},"url":"https://chanzuckerberg.github.io/cellxgene/posts/annotations.html","headline":"annotations","description":"Creating annotations","@type":"WebPage","@context":"https://schema.org"} - + diff --git a/docs/_site/posts/contact.html b/docs/_site/posts/contact.html index 626caf57..121d0056 100644 --- a/docs/_site/posts/contact.html +++ b/docs/_site/posts/contact.html @@ -16,10 +16,10 @@ +{"publisher":{"@type":"Organization","logo":{"@type":"ImageObject","url":"https://chanzuckerberg.github.io/cellxgene/cellxgene-logo.png"}},"url":"https://chanzuckerberg.github.io/cellxgene/posts/contact.html","headline":"Contact","description":"Contact","@type":"WebPage","@context":"https://schema.org"} - + diff --git a/docs/_site/posts/contribute.html b/docs/_site/posts/contribute.html index fc72f0e0..e96084ab 100644 --- a/docs/_site/posts/contribute.html +++ b/docs/_site/posts/contribute.html @@ -16,10 +16,10 @@ +{"publisher":{"@type":"Organization","logo":{"@type":"ImageObject","url":"https://chanzuckerberg.github.io/cellxgene/cellxgene-logo.png"}},"url":"https://chanzuckerberg.github.io/cellxgene/posts/contribute.html","headline":"Code of conduct","description":"An interactive explorer for single-cell transcriptomics data","@type":"WebPage","@context":"https://schema.org"} - + diff --git a/docs/_site/posts/demo-data.html b/docs/_site/posts/demo-data.html index 24a69dff..ec6b9380 100644 --- a/docs/_site/posts/demo-data.html +++ b/docs/_site/posts/demo-data.html @@ -16,10 +16,10 @@ +{"publisher":{"@type":"Organization","logo":{"@type":"ImageObject","url":"https://chanzuckerberg.github.io/cellxgene/cellxgene-logo.png"}},"url":"https://chanzuckerberg.github.io/cellxgene/posts/demo-data.html","headline":"demo-data","description":"Demo datasets","@type":"WebPage","@context":"https://schema.org"} - + diff --git a/docs/_site/posts/gallery.html b/docs/_site/posts/gallery.html index e78b4d61..5322f334 100644 --- a/docs/_site/posts/gallery.html +++ b/docs/_site/posts/gallery.html @@ -16,10 +16,10 @@ +{"publisher":{"@type":"Organization","logo":{"@type":"ImageObject","url":"https://chanzuckerberg.github.io/cellxgene/cellxgene-logo.png"}},"url":"https://chanzuckerberg.github.io/cellxgene/posts/gallery.html","headline":"Gallery","description":"An interactive explorer for single-cell transcriptomics data","@type":"WebPage","@context":"https://schema.org"} - + diff --git a/docs/_site/posts/hosted.html b/docs/_site/posts/hosted.html index 3f3a3d79..30f0a0c4 100644 --- a/docs/_site/posts/hosted.html +++ b/docs/_site/posts/hosted.html @@ -16,10 +16,10 @@ +{"publisher":{"@type":"Organization","logo":{"@type":"ImageObject","url":"https://chanzuckerberg.github.io/cellxgene/cellxgene-logo.png"}},"url":"https://chanzuckerberg.github.io/cellxgene/posts/hosted.html","headline":"Hosting cellxgene on the web","description":"An interactive explorer for single-cell transcriptomics data","@type":"WebPage","@context":"https://schema.org"} - + diff --git a/docs/_site/posts/index.html b/docs/_site/posts/index.html deleted file mode 100644 index 13cce65b..00000000 --- a/docs/_site/posts/index.html +++ /dev/null @@ -1,109 +0,0 @@ - - - - - - - - -Index | cellxgene - - - - - - - - - - - - - - - -
-
- cellxgene - -

An interactive explorer for single-cell transcriptomics data

-

- - Quick start
- - Gallery
- - Installation
- - Demo datasets
- - Preparing your data
- - Launching cellxgene
- - Hosting cellxgene
- - Contributing (ideas or code)
- - Methods
- - FAQ
- - Roadmap
- - Contact & finding help
- - - - Code - -

-
- -
-

Quick start

- -

Whether you need to visualize one thousand cells or one million, cellxgene helps you gain insight into your single-cell data.

- -

To install cellxgene you need Python 3.6+. We recommend installing cellxgene into a conda or virtual environment.

- -

Install the package.

-
pip install cellxgene
-
- -

Download an example anndata file

- -
curl -o tabula-muris.h5ad https://cellxgene-example-data.czi.technology/tabula-muris.h5ad.zip
-unzip tabula-muris.h5ad.zip
-
- -

Launch cellxgene

-
cellxgene launch tabula-muris.h5ad --open
-
- -

To explore more datasets already formatted for cellxgene, check out the Demo data or -see Preparing your data to learn more about formatting your own -data for cellxgene.

- -

Getting help

- -

We’d love to hear from you!

- -

For questions, suggestions, or accolades, join the #cellxgene-users channel on the CZI Science Slack and say “hi!”.

- -

For any errors, report bugs on Github.

- -
- -
- - - - diff --git a/docs/_site/posts/install.html b/docs/_site/posts/install.html index d4c43acd..ecfd6c08 100644 --- a/docs/_site/posts/install.html +++ b/docs/_site/posts/install.html @@ -16,10 +16,10 @@ +{"publisher":{"@type":"Organization","logo":{"@type":"ImageObject","url":"https://chanzuckerberg.github.io/cellxgene/cellxgene-logo.png"}},"url":"https://chanzuckerberg.github.io/cellxgene/posts/install.html","headline":"Install","description":"An interactive explorer for single-cell transcriptomics data","@type":"WebPage","@context":"https://schema.org"} - + diff --git a/docs/_site/posts/launch.html b/docs/_site/posts/launch.html index 5abb7fb0..e0332840 100644 --- a/docs/_site/posts/launch.html +++ b/docs/_site/posts/launch.html @@ -16,10 +16,10 @@ +{"publisher":{"@type":"Organization","logo":{"@type":"ImageObject","url":"https://chanzuckerberg.github.io/cellxgene/cellxgene-logo.png"}},"url":"https://chanzuckerberg.github.io/cellxgene/posts/launch.html","headline":"demo-data","description":"Demo datasets","@type":"WebPage","@context":"https://schema.org"} - + diff --git a/docs/_site/posts/methods.html b/docs/_site/posts/methods.html index 4fa847df..d7c20ecf 100644 --- a/docs/_site/posts/methods.html +++ b/docs/_site/posts/methods.html @@ -16,10 +16,10 @@ +{"publisher":{"@type":"Organization","logo":{"@type":"ImageObject","url":"https://chanzuckerberg.github.io/cellxgene/cellxgene-logo.png"}},"url":"https://chanzuckerberg.github.io/cellxgene/posts/methods.html","headline":"Methods","description":"An interactive explorer for single-cell transcriptomics data","@type":"WebPage","@context":"https://schema.org"} - + diff --git a/docs/_site/posts/prepare.html b/docs/_site/posts/prepare.html index 801e9efd..3cb05e6a 100644 --- a/docs/_site/posts/prepare.html +++ b/docs/_site/posts/prepare.html @@ -16,10 +16,10 @@ +{"publisher":{"@type":"Organization","logo":{"@type":"ImageObject","url":"https://chanzuckerberg.github.io/cellxgene/cellxgene-logo.png"}},"url":"https://chanzuckerberg.github.io/cellxgene/posts/prepare.html","headline":"prepare","description":"Preparing your data","@type":"WebPage","@context":"https://schema.org"} - + diff --git a/docs/_site/posts/roadmap.html b/docs/_site/posts/roadmap.html index 9a5eb8aa..83c295aa 100644 --- a/docs/_site/posts/roadmap.html +++ b/docs/_site/posts/roadmap.html @@ -16,10 +16,10 @@ +{"publisher":{"@type":"Organization","logo":{"@type":"ImageObject","url":"https://chanzuckerberg.github.io/cellxgene/cellxgene-logo.png"}},"url":"https://chanzuckerberg.github.io/cellxgene/posts/roadmap.html","headline":"roadmap","description":"Roadmap","@type":"WebPage","@context":"https://schema.org"} - + diff --git a/docs/_site/posts/troubleshooting.html b/docs/_site/posts/troubleshooting.html index 18b7defa..f6476753 100644 --- a/docs/_site/posts/troubleshooting.html +++ b/docs/_site/posts/troubleshooting.html @@ -16,10 +16,10 @@ +{"publisher":{"@type":"Organization","logo":{"@type":"ImageObject","url":"https://chanzuckerberg.github.io/cellxgene/cellxgene-logo.png"}},"url":"https://chanzuckerberg.github.io/cellxgene/posts/troubleshooting.html","headline":"Troubleshooting","description":"Troubleshooting","@type":"WebPage","@context":"https://schema.org"} - + diff --git a/docs/posts/index.html b/docs/posts/index.html deleted file mode 100644 index 13cce65b..00000000 --- a/docs/posts/index.html +++ /dev/null @@ -1,109 +0,0 @@ - - - - - - - - -Index | cellxgene - - - - - - - - - - - - - - - -
-
- cellxgene - -

An interactive explorer for single-cell transcriptomics data

-

- - Quick start
- - Gallery
- - Installation
- - Demo datasets
- - Preparing your data
- - Launching cellxgene
- - Hosting cellxgene
- - Contributing (ideas or code)
- - Methods
- - FAQ
- - Roadmap
- - Contact & finding help
- - - - Code - -

-
- -
-

Quick start

- -

Whether you need to visualize one thousand cells or one million, cellxgene helps you gain insight into your single-cell data.

- -

To install cellxgene you need Python 3.6+. We recommend installing cellxgene into a conda or virtual environment.

- -

Install the package.

-
pip install cellxgene
-
- -

Download an example anndata file

- -
curl -o tabula-muris.h5ad https://cellxgene-example-data.czi.technology/tabula-muris.h5ad.zip
-unzip tabula-muris.h5ad.zip
-
- -

Launch cellxgene

-
cellxgene launch tabula-muris.h5ad --open
-
- -

To explore more datasets already formatted for cellxgene, check out the Demo data or -see Preparing your data to learn more about formatting your own -data for cellxgene.

- -

Getting help

- -

We’d love to hear from you!

- -

For questions, suggestions, or accolades, join the #cellxgene-users channel on the CZI Science Slack and say “hi!”.

- -

For any errors, report bugs on Github.

- -
- -
- - - -