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Add symbol synonyms #91

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merged 7 commits into from
Nov 30, 2022
Merged

Add symbol synonyms #91

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7bf1561
Add demo new synonym types
cthoyt Nov 23, 2022
7314147
Update site generation
cthoyt Nov 23, 2022
dd7fabe
Update .gitignore
cthoyt Nov 23, 2022
96509e2
Reconfigure site generation and add more symbol synonyms
cthoyt Nov 30, 2022
11f68a3
Remove subscript synonyms
cthoyt Nov 30, 2022
15d77b7
Add missing delta symbol
cthoyt Nov 30, 2022
c9cf8c8
Update delta
cthoyt Nov 30, 2022
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2 changes: 2 additions & 0 deletions .gitignore
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Expand Up @@ -132,3 +132,5 @@ import.report
scratch/
.DS_Store
docs/_site
docker/edges.tsv.gz
docker/nodes.tsv.gz
6 changes: 2 additions & 4 deletions docs/ontology/0000002/index.html
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Expand Up @@ -55,10 +55,8 @@ <h5 class="card-header">

<dt>
<span class="badge badge-primary">Synonym</span>
</dt>
<dd>
doubling rate (<span class="muted">RELATED</span>)
</dd>
Related </dt>
<dd>doubling rate</dd>



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9 changes: 2 additions & 7 deletions docs/ontology/0000003/index.html
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Expand Up @@ -55,13 +55,8 @@ <h5 class="card-header">

<dt>
<span class="badge badge-primary">Synonym</span>
</dt>
<dd>
<ul>
<li>mean recovery time (<span class="muted">EXACT</span>)</li>
<li>recovery rate (<span class="muted">RELATED</span>)</li>
</ul>
</dd>
Exact </dt>
<dd>mean recovery time</dd>



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18 changes: 10 additions & 8 deletions docs/ontology/0000004/index.html
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Expand Up @@ -55,14 +55,16 @@ <h5 class="card-header">

<dt>
<span class="badge badge-primary">Synonym</span>
</dt>
<dd>
<ul>
<li>contagious time (<span class="muted">EXACT</span>)</li>
<li>infectious days (<span class="muted">NARROW</span>)</li>
<li>infectious period (<span class="muted">EXACT</span>)</li>
</ul>
</dd>
Exact </dt>
<dd>contagious time</dd>
<dt>
<span class="badge badge-primary">Synonym</span>
Narrow </dt>
<dd>infectious days</dd>
<dt>
<span class="badge badge-primary">Synonym</span>
Exact </dt>
<dd>infectious period</dd>



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21 changes: 14 additions & 7 deletions docs/ontology/0000005/index.html
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Expand Up @@ -55,13 +55,20 @@ <h5 class="card-header">

<dt>
<span class="badge badge-primary">Synonym</span>
</dt>
<dd>
<ul>
<li>transmission coefficient (<span class="muted">EXACT</span>)</li>
<li>transmission rate (<span class="muted">EXACT</span>)</li>
</ul>
</dd>
Exact </dt>
<dd>transmission coefficient</dd>
<dt>
<span class="badge badge-primary">Synonym</span>
Exact </dt>
<dd>transmission rate</dd>
<dt>
<span class="badge badge-primary">Synonym</span>
Related(Symbol LaTeX) </dt>
<dd>\beta</dd>
<dt>
<span class="badge badge-primary">Synonym</span>
Related(Symbol Text) </dt>
<dd>β</dd>



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18 changes: 10 additions & 8 deletions docs/ontology/0000006/index.html
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Expand Up @@ -55,14 +55,16 @@ <h5 class="card-header">

<dt>
<span class="badge badge-primary">Synonym</span>
</dt>
<dd>
<ul>
<li>R0 (<span class="muted">EXACT</span>)</li>
<li>basic reproductive number (<span class="muted">EXACT</span>)</li>
<li>basic reproductive rate (<span class="muted">EXACT</span>)</li>
</ul>
</dd>
Exact </dt>
<dd>R0</dd>
<dt>
<span class="badge badge-primary">Synonym</span>
Exact </dt>
<dd>basic reproductive number</dd>
<dt>
<span class="badge badge-primary">Synonym</span>
Exact </dt>
<dd>basic reproductive rate</dd>



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13 changes: 6 additions & 7 deletions docs/ontology/0000007/index.html
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Expand Up @@ -55,13 +55,12 @@ <h5 class="card-header">

<dt>
<span class="badge badge-primary">Synonym</span>
</dt>
<dd>
<ul>
<li>effective reproductive number (<span class="muted">EXACT</span>)</li>
<li>effective reproductive rate (<span class="muted">EXACT</span>)</li>
</ul>
</dd>
Exact </dt>
<dd>effective reproductive number</dd>
<dt>
<span class="badge badge-primary">Synonym</span>
Exact </dt>
<dd>effective reproductive rate</dd>



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6 changes: 2 additions & 4 deletions docs/ontology/0000008/index.html
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Expand Up @@ -55,10 +55,8 @@ <h5 class="card-header">

<dt>
<span class="badge badge-primary">Synonym</span>
</dt>
<dd>
infectivity (<span class="muted">EXACT</span>)
</dd>
Exact </dt>
<dd>infectivity</dd>



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6 changes: 2 additions & 4 deletions docs/ontology/0000010/index.html
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Expand Up @@ -55,10 +55,8 @@ <h5 class="card-header">

<dt>
<span class="badge badge-primary">Synonym</span>
</dt>
<dd>
incubation period (<span class="muted">EXACT</span>)
</dd>
Exact </dt>
<dd>incubation period</dd>



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8 changes: 8 additions & 0 deletions docs/ontology/0000011/index.html
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Expand Up @@ -53,6 +53,14 @@ <h5 class="card-header">
</dd>


<dt>
<span class="badge badge-primary">Synonym</span>
Related(Symbol LaTeX) </dt>
<dd>\delta</dd>
<dt>
<span class="badge badge-primary">Synonym</span>
Related(Symbol Text) </dt>
<dd>δ</dd>



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96 changes: 96 additions & 0 deletions docs/ontology/0000012/index.html
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@@ -0,0 +1,96 @@


<!DOCTYPE html>
<html lang="en">
<head> <meta charset="utf-8">
<meta name="viewport" content="width=device-width, initial-scale=1.0"> <link
rel="stylesheet"
href="https://maxcdn.bootstrapcdn.com/bootstrap/4.0.0/css/bootstrap.min.css"
integrity="sha384-Gn5384xqQ1aoWXA+058RXPxPg6fy4IWvTNh0E263XmFcJlSAwiGgFAW/dAiS6JXm"
crossorigin="anonymous"
/>
<link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/c3/0.6.12/c3.min.css"/>
<style>
h2 {
margin-top: 35px;
}

html, body {
height: 100%;
}

body {
display: flex;
flex-flow: column;
}

.footer {
margin-top: auto;
padding-top: 1em;
background-color: #f5f5f5;
}
</style> <title>vaccination rate</title></head>

<body>
<nav class="navbar navbar-expand-lg navbar-light bg-light">
<span class="navbar-brand">
ASKEM Ontology
</span>
</nav>

<div class="container" style="margin-top: 50px; margin-bottom: 50px">
<div class="card">
<h5 class="card-header">
<span class="badge badge-info">Term</span>
vaccination rate
</h5>
<div class="card-body">
<p>The rate at which individuals take up vaccination.</p>
<dl>
<dt>Local Unique Identifier</dt>
<dd>
<a href="http://34.230.33.149:8772/askemo:0000012">0000012</a>
</dd>





<dt>
<span class="badge badge-primary">Property</span>
suggested_data_type
</dt>
<dd>
float
</dd>
<dt>
<span class="badge badge-primary">Property</span>
suggested_unit
</dt>
<dd>
1 / day
</dd>
<dt>
<span class="badge badge-primary">Property</span>
physical_min
</dt>
<dd>
0.0
</dd>
</dl>
</div>
</div></div>

<footer class="footer">
<p class="small text-center text-muted">
Generated with PyOBO
</p>
</footer>

<script src="https://code.jquery.com/jquery-3.2.1.slim.min.js"
integrity="sha384-KJ3o2DKtIkvYIK3UENzmM7KCkRr/rE9/Qpg6aAZGJwFDMVNA/GpGFF93hXpG5KkN"
crossorigin="anonymous"></script>
<script src="https://maxcdn.bootstrapcdn.com/bootstrap/4.0.0/js/bootstrap.min.js"
integrity="sha384-JZR6Spejh4U02d8jOt6vLEHfe/JQGiRRSQQxSfFWpi1MquVdAyjUar5+76PVCmYl"
crossorigin="anonymous"></script></body>
</html>
104 changes: 104 additions & 0 deletions docs/ontology/0000013/index.html
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@@ -0,0 +1,104 @@


<!DOCTYPE html>
<html lang="en">
<head> <meta charset="utf-8">
<meta name="viewport" content="width=device-width, initial-scale=1.0"> <link
rel="stylesheet"
href="https://maxcdn.bootstrapcdn.com/bootstrap/4.0.0/css/bootstrap.min.css"
integrity="sha384-Gn5384xqQ1aoWXA+058RXPxPg6fy4IWvTNh0E263XmFcJlSAwiGgFAW/dAiS6JXm"
crossorigin="anonymous"
/>
<link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/c3/0.6.12/c3.min.css"/>
<style>
h2 {
margin-top: 35px;
}

html, body {
height: 100%;
}

body {
display: flex;
flex-flow: column;
}

.footer {
margin-top: auto;
padding-top: 1em;
background-color: #f5f5f5;
}
</style> <title>recovery rate</title></head>

<body>
<nav class="navbar navbar-expand-lg navbar-light bg-light">
<span class="navbar-brand">
ASKEM Ontology
</span>
</nav>

<div class="container" style="margin-top: 50px; margin-bottom: 50px">
<div class="card">
<h5 class="card-header">
<span class="badge badge-info">Term</span>
recovery rate
</h5>
<div class="card-body">
<p>The rate at which individuals recover after being infected.</p>
<dl>
<dt>Local Unique Identifier</dt>
<dd>
<a href="http://34.230.33.149:8772/askemo:0000013">0000013</a>
</dd>


<dt>
<span class="badge badge-primary">Synonym</span>
Related(Symbol Text) </dt>
<dd>γ</dd>
<dt>
<span class="badge badge-primary">Synonym</span>
Related(Symbol LaTeX) </dt>
<dd>\gamma</dd>



<dt>
<span class="badge badge-primary">Property</span>
suggested_data_type
</dt>
<dd>
float
</dd>
<dt>
<span class="badge badge-primary">Property</span>
suggested_unit
</dt>
<dd>
1 / day
</dd>
<dt>
<span class="badge badge-primary">Property</span>
physical_min
</dt>
<dd>
0.0
</dd>
</dl>
</div>
</div></div>

<footer class="footer">
<p class="small text-center text-muted">
Generated with PyOBO
</p>
</footer>

<script src="https://code.jquery.com/jquery-3.2.1.slim.min.js"
integrity="sha384-KJ3o2DKtIkvYIK3UENzmM7KCkRr/rE9/Qpg6aAZGJwFDMVNA/GpGFF93hXpG5KkN"
crossorigin="anonymous"></script>
<script src="https://maxcdn.bootstrapcdn.com/bootstrap/4.0.0/js/bootstrap.min.js"
integrity="sha384-JZR6Spejh4U02d8jOt6vLEHfe/JQGiRRSQQxSfFWpi1MquVdAyjUar5+76PVCmYl"
crossorigin="anonymous"></script></body>
</html>
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