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pablo-gar committed Oct 24, 2023
1 parent 33dce83 commit 481a5f3
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4 changes: 2 additions & 2 deletions _sources/cellxgene_census_aws_open_data.md.txt
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The single-cell data from [CZ CELLxGENE Discover Census](cellxgene_census_docsite_landing.md) are available for public access via Amazon Web Services (AWS).

This page describes what Census data is available in AWS and how to access them.
This page describes what Census data are available in AWS and how to access them.

Contents

Expand Down Expand Up @@ -122,7 +122,7 @@ config = {
ctx = tiledbsoma.options.SOMATileDBContext()
ctx = ctx.replace(tiledb_config=config)

uri = "s3:/cellxgene-census-public/cell-census/2023-07-25/soma/"
uri = "s3://cellxgene-census-public/cell-census/2023-07-25/soma/"

with tiledbsoma.open(uri, context=ctx) as census:
cell_metadata = census["census_data"]["homo_sapiens"].obs.read(
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4 changes: 2 additions & 2 deletions cellxgene_census_aws_open_data.html
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<section id="cz-cellxgene-discover-census-in-aws">
<h1>CZ CELLxGENE Discover Census in AWS<a class="headerlink" href="#cz-cellxgene-discover-census-in-aws" title="Permalink to this heading"></a></h1>
<p>The single-cell data from <a class="reference internal" href="cellxgene_census_docsite_landing.html"><span class="std std-doc">CZ CELLxGENE Discover Census</span></a> are available for public access via Amazon Web Services (AWS).</p>
<p>This page describes what Census data is available in AWS and how to access them.</p>
<p>This page describes what Census data are available in AWS and how to access them.</p>
<p>Contents</p>
<ul class="simple">
<li><p><a class="reference internal" href="#census-data-available-in-aws"><span class="std std-ref">Census data available in AWS</span></a></p></li>
Expand Down Expand Up @@ -295,7 +295,7 @@ <h3>TileDB-SOMA API (Python and R)<a class="headerlink" href="#tiledb-soma-api-p
<span class="n">ctx</span> <span class="o">=</span> <span class="n">tiledbsoma</span><span class="o">.</span><span class="n">options</span><span class="o">.</span><span class="n">SOMATileDBContext</span><span class="p">()</span>
<span class="n">ctx</span> <span class="o">=</span> <span class="n">ctx</span><span class="o">.</span><span class="n">replace</span><span class="p">(</span><span class="n">tiledb_config</span><span class="o">=</span><span class="n">config</span><span class="p">)</span>

<span class="n">uri</span> <span class="o">=</span> <span class="s2">&quot;s3:/cellxgene-census-public/cell-census/2023-07-25/soma/&quot;</span>
<span class="n">uri</span> <span class="o">=</span> <span class="s2">&quot;s3://cellxgene-census-public/cell-census/2023-07-25/soma/&quot;</span>

<span class="k">with</span> <span class="n">tiledbsoma</span><span class="o">.</span><span class="n">open</span><span class="p">(</span><span class="n">uri</span><span class="p">,</span> <span class="n">context</span><span class="o">=</span><span class="n">ctx</span><span class="p">)</span> <span class="k">as</span> <span class="n">census</span><span class="p">:</span>
<span class="n">cell_metadata</span> <span class="o">=</span> <span class="n">census</span><span class="p">[</span><span class="s2">&quot;census_data&quot;</span><span class="p">][</span><span class="s2">&quot;homo_sapiens&quot;</span><span class="p">]</span><span class="o">.</span><span class="n">obs</span><span class="o">.</span><span class="n">read</span><span class="p">(</span>
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4 changes: 2 additions & 2 deletions notebooks/experimental/pytorch.ipynb
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},
{
"cell_type": "markdown",
"id": "9d663c05",
"id": "3d7f7e8f",
"metadata": {
"collapsed": false
},
Expand All @@ -130,7 +130,7 @@
},
{
"cell_type": "markdown",
"id": "24771605",
"id": "001aeb36",
"metadata": {
"collapsed": false
},
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