-
Notifications
You must be signed in to change notification settings - Fork 0
/
Copy pathindex.html
190 lines (148 loc) · 7.8 KB
/
index.html
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
<!DOCTYPE html>
<html lang="en">
<head>
<meta charset="UTF-8">
<title>Introduction to Mathematical Models of the Epidemiology & Control of Infectious Diseases - 2024</title>
<link rel="stylesheet" href="wodin.css"/>
<link rel="stylesheet" href="files/index/index.css"/>
<link rel="stylesheet" href="files/index/collapse.css"/>
<script language="JavaScript" type="text/javascript" src="files/index/jquery-1.11.3/jquery.min.js"></script>
<script src="files/index/staff.js"></script>
<script src="files/index/collapse.js"></script>
<script src="files/index/after.js"></script>
</head>
<body>
<div class="main">
<div class="container mt-5">
<h1>Introduction to Mathematical Models of the Epidemiology & Control of Infectious Diseases - 2024</h1>
<p>
Welcome to the Imperial College London short course
"Introduction to Mathematical Models of the Epidemiology and Control of Infectious Diseases"
(<a href="http://www.infectiousdiseasemodels.org/">infectiousdiseasemodels.org</a>).
</p>
<h2>Week 1</h2>
<h3>Introduction to R0 and the odin interface</h3>
<p><a href="apps/introduction">Go to app</a></p>
<div class="show-after" data-after="2024/09/12 17:00:00">
<button class="collapsible">Solutions (click to expand)</button>
<div class="content">
<ul>
<li><a href="files/introduction/exponential.R"><code>exponential.R</code></a></li>
<li><a href="files/introduction/seirs.R"><code>seirs.R</code></a></li>
<li><a href="files/introduction/sir_closed.R"><code>sir_closed.R</code></a></li>
<li><a href="files/introduction/sir_open.R"><code>sir_open.R</code></a></li>
<li><a href="files/introduction/sir_open_r0.R"><code>sir_open_r0.R</code></a></li>
</ul>
</div>
</div>
<h3>Estimating key parameters from an outbreak of COVID and influenza</h3>
<p><a href="apps/flu">Go to app</a></p>
<p>Supporting files</p>
<ul>
<li><a href="files/flu/influenza_data.csv">Influenza data</a></li>
<li><a href="files/flu/solution1.R"><code>solution1.R</code></a></li>
<li><a href="files/flu/solution2.R"><code>solution2.R</code></a></li>
</ul>
<h3>Modelling vaccination</h3>
<p><a href="apps/vaccination">Go to app</a></p>
<div class="show-after" data-after="2024/09/13 17:00:00">
<button class="collapsible">Solutions (click to expand)</button>
<div class="content">
<ul>
<li><a href="files/vaccination/solution1.R"><code>solution1.R</code></a></li>
<li><a href="files/vaccination/solution2.R"><code>solution2.R</code></a></li>
<li><a href="files/vaccination/solution3.R"><code>solution3.R</code></a></li>
<li><a href="files/vaccination/solution4.R"><code>solution4.R</code></a></li>
</ul>
</div>
</div>
<h3>Stochasticity</h3>
<p>There are four apps for this session</p>
<ol>
<li><a href="apps/stochasticity-1">Birth process</a></li>
<li><a href="apps/stochasticity-2">Birth and death</a></li>
<li><a href="apps/stochasticity-3">SIS model</a></li>
<li><a href="apps/stochasticity-4">SIR model</a></li>
</ol>
<h2>Week 2</h2>
<h3>Modelling vector-borne diseases</h3>
<p><a href="apps/vbd">Go to app</a></p>
<div class="show-after" data-after="2024/09/16 13:20">
<button class="collapsible">Solutions (click to expand)</button>
<div class="content">
<p>Supporting files</p>
<ul>
<li><a href="files/vbd/basic_model.R"><code>basic_model.R</code></a></li>
<li><a href="files/vbd/latent_model.R"><code>latent_model.R</code></a></li>
</ul>
</div>
</div>
<h3>Outbreaks</h3>
<p><a href="apps/outbreaks">Go to app</a></p>
<p>Supporting files</p>
<ul>
<li>
<a href="files/outbreaks/flowcharts.pdf">flowcharts</a>,
describing the models that should be written
</li>
<li><a href="files/outbreaks/data.csv">input data</a>
</ul>
<div class="show-after" data-after="2024/09/21 12:00:00">
<button class="collapsible">Solutions (click to expand)</button>
<div class="content">
<ul>
<li><a href="files/outbreaks/model1.R"><code>model1.R</code></a></li>
<li><a href="files/outbreaks/model1_fitted.R"><code>model1_fitted.R</code></a></li>
<li><a href="files/outbreaks/model2.R"><code>model2.R</code></a></li>
<li><a href="files/outbreaks/model2_fitted.R"><code>model2_fitted.R</code></a></li>
<li><a href="files/outbreaks/model3.R"><code>model3.R</code></a></li>
<li><a href="files/outbreaks/model3_fitted.R"><code>model3_fitted.R</code></a></li>
</ul>
</div>
</div>
<h3>Malaria</h3>
<p><a href="apps/malaria-1">Basic model</a></p>
<p><a href="apps/malaria-2">Vaccine coverage example</a></p>
<div class="show-after" data-after="2024/09/19 17:00:00">
<button class="collapsible">Solutions (click to expand)</button>
<div class="content">
<ul>
<li><a href="files/malaria/solution.R"><code>solution.R</code></a></li>
</ul>
</div>
</div>
<h3>HIV</h3>
<p><a href="apps/hiv">Go to app</a></p>
<div class="show-after" data-after="2024/09/17 17:00:00">
<button class="collapsible">Solutions (click to expand)</button>
<div class="content">
<ul>
<li><a href="files/hiv/task3.R"><code>task3.R</code></a></li>
<li><a href="files/hiv/task7.R"><code>task7.R</code></a></li>
<li><a href="files/hiv/task10.R"><code>task10.R</code></a></li>
<li><a href="files/hiv/task13.R"><code>task13.R</code></a></li>
<li><a href="files/hiv/task14.R"><code>task14.R</code></a></li>
</ul>
</div>
</div>
<h2>Help</h2>
<p>
A general help file for writing model (<code>odin</code>) code
and navigating the interface can be
found <a href="https://mrc-ide.github.io/wodin-shortcourse-2024/guide/">here</a>.
</p>
<p>
For transitioning from this interface into R and Rstudio we
have <a href="https://mrc-ide.github.io/infectiousdiseasemodels-2022/transition/">
compiled
a list of useful resources and a simple example
</a> to start
the transition
</p>
<div class="float-right">
<img src="files/index/reside_logo.png" class="mb-5" style="width:150px; display:block;">
</div>
</div>
</div>
</body>
</html>