forked from privefl/rmarkdown-website-template
-
Notifications
You must be signed in to change notification settings - Fork 2
/
Copy pathdata_challenges_HADACAconsortium.html
414 lines (350 loc) · 11.4 KB
/
data_challenges_HADACAconsortium.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
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
236
237
238
239
240
241
242
243
244
245
246
247
248
249
250
251
252
253
254
255
256
257
258
259
260
261
262
263
264
265
266
267
268
269
270
271
272
273
274
275
276
277
278
279
280
281
282
283
284
285
286
287
288
289
290
291
292
293
294
295
296
297
298
299
300
301
302
303
304
305
306
307
308
309
310
311
312
313
314
315
316
317
318
319
320
321
322
323
324
325
326
327
328
329
330
331
332
333
334
335
336
337
338
339
340
341
342
343
344
345
346
347
348
349
350
351
352
353
354
355
356
357
358
359
360
361
362
363
364
365
366
367
368
369
370
371
372
373
374
375
376
377
378
379
380
381
382
383
384
385
386
387
388
389
390
391
392
393
394
395
396
397
398
399
400
401
402
403
404
405
406
407
408
409
410
411
412
413
414
<!DOCTYPE html>
<html xmlns="http://www.w3.org/1999/xhtml">
<head>
<meta charset="utf-8" />
<meta http-equiv="Content-Type" content="text/html; charset=utf-8" />
<meta name="generator" content="pandoc" />
<title>HADACA Consortium</title>
<script src="site_libs/jquery-1.11.3/jquery.min.js"></script>
<meta name="viewport" content="width=device-width, initial-scale=1" />
<link href="site_libs/bootstrap-3.3.5/css/readable.min.css" rel="stylesheet" />
<script src="site_libs/bootstrap-3.3.5/js/bootstrap.min.js"></script>
<script src="site_libs/bootstrap-3.3.5/shim/html5shiv.min.js"></script>
<script src="site_libs/bootstrap-3.3.5/shim/respond.min.js"></script>
<script src="site_libs/navigation-1.1/tabsets.js"></script>
<link href="site_libs/highlightjs-9.12.0/textmate.css" rel="stylesheet" />
<script src="site_libs/highlightjs-9.12.0/highlight.js"></script>
<link href="site_libs/font-awesome-5.1.0/css/all.css" rel="stylesheet" />
<link href="site_libs/font-awesome-5.1.0/css/v4-shims.css" rel="stylesheet" />
<div><img src="pictures/cover.png" width="100%" align="center"></div>
<style type="text/css">code{white-space: pre;}</style>
<style type="text/css">
pre:not([class]) {
background-color: white;
}
</style>
<script type="text/javascript">
if (window.hljs) {
hljs.configure({languages: []});
hljs.initHighlightingOnLoad();
if (document.readyState && document.readyState === "complete") {
window.setTimeout(function() { hljs.initHighlighting(); }, 0);
}
}
</script>
<style type="text/css">
h1 {
font-size: 34px;
}
h1.title {
font-size: 38px;
}
h2 {
font-size: 30px;
}
h3 {
font-size: 24px;
}
h4 {
font-size: 18px;
}
h5 {
font-size: 16px;
}
h6 {
font-size: 12px;
}
.table th:not([align]) {
text-align: left;
}
</style>
</head>
<body>
<style type = "text/css">
.main-container {
max-width: 940px;
margin-left: auto;
margin-right: auto;
}
code {
color: inherit;
background-color: rgba(0, 0, 0, 0.04);
}
img {
max-width:100%;
height: auto;
}
.tabbed-pane {
padding-top: 12px;
}
.html-widget {
margin-bottom: 20px;
}
button.code-folding-btn:focus {
outline: none;
}
summary {
display: list-item;
}
</style>
<style type="text/css">
/* padding for bootstrap navbar */
body {
padding-top: 66px;
padding-bottom: 40px;
}
/* offset scroll position for anchor links (for fixed navbar) */
.section h1 {
padding-top: 71px;
margin-top: -71px;
}
.section h2 {
padding-top: 71px;
margin-top: -71px;
}
.section h3 {
padding-top: 71px;
margin-top: -71px;
}
.section h4 {
padding-top: 71px;
margin-top: -71px;
}
.section h5 {
padding-top: 71px;
margin-top: -71px;
}
.section h6 {
padding-top: 71px;
margin-top: -71px;
}
.dropdown-submenu {
position: relative;
}
.dropdown-submenu>.dropdown-menu {
top: 0;
left: 100%;
margin-top: -6px;
margin-left: -1px;
border-radius: 0 6px 6px 6px;
}
.dropdown-submenu:hover>.dropdown-menu {
display: block;
}
.dropdown-submenu>a:after {
display: block;
content: " ";
float: right;
width: 0;
height: 0;
border-color: transparent;
border-style: solid;
border-width: 5px 0 5px 5px;
border-left-color: #cccccc;
margin-top: 5px;
margin-right: -10px;
}
.dropdown-submenu:hover>a:after {
border-left-color: #ffffff;
}
.dropdown-submenu.pull-left {
float: none;
}
.dropdown-submenu.pull-left>.dropdown-menu {
left: -100%;
margin-left: 10px;
border-radius: 6px 0 6px 6px;
}
</style>
<script>
// manage active state of menu based on current page
$(document).ready(function () {
// active menu anchor
href = window.location.pathname
href = href.substr(href.lastIndexOf('/') + 1)
if (href === "")
href = "index.html";
var menuAnchor = $('a[href="' + href + '"]');
// mark it active
menuAnchor.parent().addClass('active');
// if it's got a parent navbar menu mark it active as well
menuAnchor.closest('li.dropdown').addClass('active');
});
</script>
<div class="container-fluid main-container">
<!-- tabsets -->
<style type="text/css">
.tabset-dropdown > .nav-tabs {
display: inline-table;
max-height: 500px;
min-height: 44px;
overflow-y: auto;
background: white;
border: 1px solid #ddd;
border-radius: 4px;
}
.tabset-dropdown > .nav-tabs > li.active:before {
content: "";
font-family: 'Glyphicons Halflings';
display: inline-block;
padding: 10px;
border-right: 1px solid #ddd;
}
.tabset-dropdown > .nav-tabs.nav-tabs-open > li.active:before {
content: "";
border: none;
}
.tabset-dropdown > .nav-tabs.nav-tabs-open:before {
content: "";
font-family: 'Glyphicons Halflings';
display: inline-block;
padding: 10px;
border-right: 1px solid #ddd;
}
.tabset-dropdown > .nav-tabs > li.active {
display: block;
}
.tabset-dropdown > .nav-tabs > li > a,
.tabset-dropdown > .nav-tabs > li > a:focus,
.tabset-dropdown > .nav-tabs > li > a:hover {
border: none;
display: inline-block;
border-radius: 4px;
}
.tabset-dropdown > .nav-tabs.nav-tabs-open > li {
display: block;
float: none;
}
.tabset-dropdown > .nav-tabs > li {
display: none;
}
</style>
<script>
$(document).ready(function () {
window.buildTabsets("TOC");
});
$(document).ready(function () {
$('.tabset-dropdown > .nav-tabs > li').click(function () {
$(this).parent().toggleClass('nav-tabs-open')
});
});
</script>
<!-- code folding -->
<div class="navbar navbar-inverse navbar-fixed-top" role="navigation">
<div class="container">
<div class="navbar-header">
<button type="button" class="navbar-toggle collapsed" data-toggle="collapse" data-target="#navbar">
<span class="icon-bar"></span>
<span class="icon-bar"></span>
<span class="icon-bar"></span>
</button>
<a class="navbar-brand" href="index.html">Cancer Heterogeneity</a>
</div>
<div id="navbar" class="navbar-collapse collapse">
<ul class="nav navbar-nav">
<li>
<a href="index.html">
<span class="fa fa-home"></span>
Home
</a>
</li>
<li>
<a href="data_challenges.html">
<span class="fa fa-universal-access"></span>
Data Challenges
</a>
</li>
<li>
<a href="cometh.html">
<span class="fa fa-cogs"></span>
Cometh
</a>
</li>
<li>
<a href="deconbench.html">
<span class="fa fa-code-fork"></span>
Deconbench
</a>
</li>
<li>
<a href="https://cancer-heterogeneity.github.io/blog/">
<span class="fa fa-rss"></span>
Blog
</a>
</li>
</ul>
<ul class="nav navbar-nav navbar-right">
<li>
<a href="mailto:[email protected], [email protected]">
<span class="fa fa-envelope-o"></span>
Contact us
</a>
</li>
<li>
<a href="https://github.com/cancer-heterogeneity">
<span class="fa fa-github"></span>
GitHub
</a>
</li>
</ul>
</div><!--/.nav-collapse -->
</div><!--/.container -->
</div><!--/.navbar -->
<div class="fluid-row" id="header">
<h1 class="title toc-ignore">HADACA Consortium</h1>
</div>
<div id="nd-edition" class="section level2">
<h2>(2nd Edition)</h2>
<div id="authors" class="section level3">
<h3>Authors</h3>
<p>Nicolas Alcala<sup>6</sup>, Alexis Arnaud<sup>2</sup>, Francisco Avila Cobos<sup>7</sup>, Luciana Batista<sup>8</sup>, Anne-Françoise Batto<sup>9</sup>, Yuna Blum<sup>3</sup>, Florent Chuffart<sup>10</sup>, Jérôme Cros<sup>5</sup>, Clémentine Decamps<sup>1</sup>, Lara Dirian<sup>11</sup>, Daria Doncevic<sup>12</sup>, Ghislain Durif<sup>13</sup>, Silvia Yahel Bahena Hernandez<sup>14</sup>, Milan Jakobi<sup>10</sup>, Rémy Jardillier<sup>15</sup>, Marine Jeanmougin<sup>16</sup>, Pau Jedynak<sup>10</sup>, Basile Jumentier<sup>1</sup>, Aliaksandra Kakoichankava<sup>17</sup>, Maria Kondili<sup>18</sup>, Jing Liu<sup>19</sup>, Tiago Maie<sup>20</sup>, Jules Marécaille<sup>11</sup>, Jane Merlevede<sup>21</sup>, Maxime Meylan<sup>3,22</sup>, Petr Nazarov<sup>23</sup>, Kapil Newar<sup>1</sup>, Karl Nyrén<sup>14</sup>, Florent Petitprez<sup>3</sup>, Claudio Novella Rausell<sup>14</sup>, Magali Richard<sup>1</sup>, Michael Scherer<sup>24</sup>, Nicolas Sompairac<sup>21</sup>, Katharina Waury<sup>14</sup>, Ting Xie<sup>25</sup> & Markella-Achilleia Zacharouli<sup>14</sup></p>
</div>
<div id="affiliations" class="section level3">
<h3>Affiliations</h3>
<p><sup>1</sup> Laboratory TIMC-IMAG, UMR 5525, Univ. Grenoble Alpes, CNRS, Grenoble, France.<br />
<sup>2</sup> Data Institute, Univ. Grenoble Alpes, Grenoble, France.<br />
<sup>3</sup> Programme Cartes d’Identité des Tumeurs (CIT), Ligue Nationale Contre le Cancer, Paris, France.<br />
<sup>4</sup> INSERM U1068 CRCM, Marseille, France.<br />
<sup>5</sup> Beaujon Hospital, Dpt of Pathology - Univ. Paris-INSERM U1149; Clichy, France.<br />
<sup>6</sup> Section of Genetics, International Agency for Research on Cancer (IARC-WHO), Lyon, France<br />
<sup>7</sup> Center for Medical Genetics Ghent, Department of Biomolecular Medicine, Ghent University, Ghent, Belgium.<br />
<sup>8</sup> Innate Pharma, Marseille, France<br />
<sup>9</sup> Equipe Cancer et Immunité- INSERM Centre de Recherche des Cordeliers, Paris, France<br />
<sup>10</sup> Institute for Advanced Biosciences, CNRS UMR 5309, Inserm, U1209, Univ. Grenoble Alpes, F-38700 Grenoble, France<br />
<sup>11</sup> Verteego, Paris, France<br />
<sup>12</sup> Health Data Science Unit, BioQuant Center and Medical Faculty Heidelberg<br />
<sup>13</sup> Université de Montpellier, CNRS, IMAG UMR 5149, Montpellier, France <sup>14</sup> Uppsala University, SE-751 05, Uppsala, Sweden<br />
<sup>15</sup> University Grenoble Alpes, CEA, INSERM, IRIG, Biology of Cancer Infection UMR_S 1036, 38000 Grenoble, France & University Grenoble Alpes, CNRS, Grenoble INP, GIPSA-lab, Institute of Engineering University Grenoble Alpes, 38000 Grenoble, France<br />
<sup>16</sup> Department of Molecular Oncology, Institute for Cancer Research, Oslo University Hospital, The Norwegian Radium Hospital - Oslo, Norway<br />
<sup>17</sup> Vitebsk State Medical University & NatiVita, Vitebsk, Belarus<br />
<sup>18</sup> Centre de Recherche de St.Antoine,Paris, AP-HP<br />
<sup>19</sup> Institut Curie, PSL Research University, Sorbonne Universités, UPMC Université Paris 06, CNRS, UMR144, Equipe Labellisée Ligue contre le Cancer, 75005 Paris, France<br />
<sup>20</sup> Institute for Computational Genomics, Joint Research Center for Computational Biomedicine, RWTH Aachen University Medical School, Aachen, Germany<br />
<sup>21</sup> Institut Curie, PSL Research University, Mines Paris Tech, Inserm, U900, F−75005, Paris, France<br />
<sup>22</sup> INSERM U1138 Centre de Recherche des Cordeliers, France<br />
<sup>23</sup> Quantitative Biology Unit, Luxembourg Institute of Health, L-1445 Strassen, Luxembourg<br />
<sup>24</sup> Department of Genetics/Epigenetics, Saarland University, Saarbrücken, Germany<br />
<sup>25</sup> Centre de Recherche en Cancérologie de Toulouse, Inserm UMR 1037, F-31037, Toulouse, France</p>
</div>
</div>
</div>
<script>
// add bootstrap table styles to pandoc tables
function bootstrapStylePandocTables() {
$('tr.header').parent('thead').parent('table').addClass('table table-condensed');
}
$(document).ready(function () {
bootstrapStylePandocTables();
});
</script>
<!-- dynamically load mathjax for compatibility with self-contained -->
<script>
(function () {
var script = document.createElement("script");
script.type = "text/javascript";
script.src = "https://mathjax.rstudio.com/latest/MathJax.js?config=TeX-AMS-MML_HTMLorMML";
document.getElementsByTagName("head")[0].appendChild(script);
})();
</script>
</body>
</html>