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authorPjotr Prins2020-07-21 07:52:13 +0100
committerPjotr Prins2020-07-21 07:52:13 +0100
commit2e96d0d87abd6357868114b0b59ee66b08985235 (patch)
treeddf38f6dca5f5a9ae69b430693ef0d1e64193ff5 /doc/web
parentc5b337fb20790fad3ae3e7a4c2928081de1c98ba (diff)
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Documenting exports and REST API
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+<title>About/FAQ</title>
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+<meta name="author" content="Pjotr Prins" />
+<style type="text/css">
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+ { background-color: #ffff00; color: #000000; font-weight: bold; }
+ .org-svg { width: 90%; }
+ /*]]>*/-->
+</style>
+<script type="text/javascript">
+/*
+@licstart The following is the entire license notice for the
+JavaScript code in this tag.
+
+Copyright (C) 2012-2020 Free Software Foundation, Inc.
+
+The JavaScript code in this tag is free software: you can
+redistribute it and/or modify it under the terms of the GNU
+General Public License (GNU GPL) as published by the Free Software
+Foundation, either version 3 of the License, or (at your option)
+any later version. The code is distributed WITHOUT ANY WARRANTY;
+without even the implied warranty of MERCHANTABILITY or FITNESS
+FOR A PARTICULAR PURPOSE. See the GNU GPL for more details.
+
+As additional permission under GNU GPL version 3 section 7, you
+may distribute non-source (e.g., minimized or compacted) forms of
+that code without the copy of the GNU GPL normally required by
+section 4, provided you include this license notice and a URL
+through which recipients can access the Corresponding Source.
+
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+@licend The above is the entire license notice
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+</script>
+</head>
+<body>
+<div id="content">
+<h1 class="title">About/FAQ</h1>
+<div id="table-of-contents">
+<h2>Table of Contents</h2>
+<div id="text-table-of-contents">
+<ul>
+<li><a href="#org1b344eb">1. Export data</a></li>
+<li><a href="#orgc7785c0">2. SPARQL API</a></li>
+<li><a href="#org5b66ee0">3. REST API</a></li>
+<li><a href="#org3f92e6f">4. Export EBI/ENA Forms</a></li>
+</ul>
+</div>
+</div>
+
+<div id="outline-container-org1b344eb" class="outline-2">
+<h2 id="org1b344eb"><span class="section-number-2">1</span> Export data</h2>
+<div class="outline-text-2" id="text-1">
+<p>
+Apart from straight file <a href="http://covid19.genenetwork.org/download">downloads</a> COVID-19 PubSeq allows for
+exporting forms and data for other services.
+</p>
+</div>
+</div>
+
+<div id="outline-container-orgc7785c0" class="outline-2">
+<h2 id="orgc7785c0"><span class="section-number-2">2</span> SPARQL API</h2>
+<div class="outline-text-2" id="text-2">
+<p>
+First of all, PubSeq exports a SPARQL endpoint <a href="http://sparql.genenetwork.org/sparql/">here</a> that allows you do
+do any query on the data. See this <a href="http://covid19.genenetwork.org/blog?id=using-covid-19-pubseq-part1">document</a> for examples.
+</p>
+</div>
+</div>
+
+<div id="outline-container-org5b66ee0" class="outline-2">
+<h2 id="org5b66ee0"><span class="section-number-2">3</span> REST API</h2>
+<div class="outline-text-2" id="text-3">
+<p>
+In addition to above flexible SPARQL endpoint - which is essentially
+is a query REST API - PubSeq exports its own
+<a href="http://covid19.genenetwork.org/apidoc">REST API</a>.
+</p>
+</div>
+</div>
+
+<div id="outline-container-org3f92e6f" class="outline-2">
+<h2 id="org3f92e6f"><span class="section-number-2">4</span> Export EBI/ENA Forms</h2>
+<div class="outline-text-2" id="text-4">
+<p>
+Uploading data to EBI/ENA with PubSeq is described <a href="http://covid19.genenetwork.org/blog?id=using-covid-19-pubseq-part6">here</a>.
+</p>
+
+<p>
+To export,
+first search for an uploaded entry through its identifier:
+</p>
+</div>
+</div>
+</div>
+<div id="postamble" class="status">
+<hr><small>Created by <a href="http://thebird.nl/">Pjotr Prins</a> (pjotr.public768 at thebird 'dot' nl) using Emacs org-mode and a healthy dose of Lisp!<br />Modified 2020-07-21 Tue 01:51</small>.
+</div>
+</body>
+</html>
diff --git a/doc/web/export.org b/doc/web/export.org
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+#+TITLE: About/FAQ
+#+AUTHOR: Pjotr Prins
+
+* Table of Contents :TOC:noexport:
+ - [[#export-data][Export data]]
+ - [[#sparql-api][SPARQL API]]
+ - [[#rest-api][REST API]]
+ - [[#export-ebiena-forms][Export EBI/ENA Forms]]
+
+* Export data
+
+Apart from straight file [[http://covid19.genenetwork.org/download][downloads]] COVID-19 PubSeq allows for
+exporting forms and data for other services.
+
+* SPARQL API
+
+
+First of all, PubSeq exports a SPARQL endpoint [[http://sparql.genenetwork.org/sparql/][here]] that allows you do
+do any query on the data. See this [[http://covid19.genenetwork.org/blog?id=using-covid-19-pubseq-part1][document]] for examples.
+
+* REST API
+
+In addition to above flexible SPARQL endpoint - which is essentially
+is a query REST API - PubSeq exports its own
+[[http://covid19.genenetwork.org/apidoc][REST API]].
+
+* Export EBI/ENA Forms
+
+Uploading data to EBI/ENA with PubSeq is described [[http://covid19.genenetwork.org/blog?id=using-covid-19-pubseq-part6][here]].
+
+To export,
+first search for an uploaded entry through its identifier:
generated by cgit v1.2.3 (git 2.45.2) at 2024-11-22 08:43:27 +0000