-
Notifications
You must be signed in to change notification settings - Fork 2
/
Copy pathdemo.html
executable file
·60 lines (57 loc) · 3.36 KB
/
demo.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
<!DOCTYPE html>
<html>
<head>
<meta name="GENERATOR" content="Microsoft FrontPage 6.0">
<meta name="ProgId" content="FrontPage.Editor.Document">
<meta name="author" content="C.J. Liu">
<meta name="description" content="">
<meta name="keywords" content="">
<meta name="robots" content="all">
<meta HTTP-EQUIV="Content-Type" content="text/html; charset=utf-8">
<title>Demo usage for SEGtool</title>
<!---<link rel="stylesheet" href="bootstrap-3.3.5-dist/css/bootstrap.min.css"></link>--->
<link media="all" type="text/css" rel="stylesheet" href="main.css">
<script type="text/javascript" src="scripts/shCore.js"></script>
<script type="text/javascript" src="scripts/shBrushCSharp.js"></script>
<link type="text/css" rel="stylesheet" href="styles/shCore.css"/>
<link type="text/css" rel="stylesheet" href="styles/shThemeDefault.css"/>
<script type="text/javascript">
SyntaxHighlighter.config.clipboardSwf = 'scripts/clipboard.swf';
SyntaxHighlighter.all();
</script>
</head>
<body>
<pre class="brush: c-sharp;">
>library(SEGtool)
>data(EbiHumanExpression)
>SEGtool_result <- SEGtool (EbiHumanExpression, exp_cutoff = 3,multi_cpu = 4, detect_mod=2, result_outdir='SEGtool_result', draw_heatmap=FALSE, draw_pca=FALSE, draw_plot=FALSE, html_report=FALSE)
</pre>
<p> The input format of dataset is as follow:</p>
<table>
<tr><th>GeneID</th><th>Adipose</th><th>Muscle</th><th>Heart</th><th>Ovary</th><th>Uterus</th></tr>
<tr><td class = "geneid">ENSG00000223972</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td></tr>
<tr><td class = "geneid">ENSG00000227232</td><td>5.8</td><td>6.7</td><td>6.0</td><td>2.9</td><td>10.4</td></tr>
<tr><td class = "geneid">ENSG00000243485</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td></tr>
<tr><td class = "geneid">ENSG00000237613</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td></tr>
</table>
<p> Part of result, the number 1 and -1 represents SEGs(1 is high, -1 means low)</p>
<table>
<tr><th>GeneID</th><th>Adipose</th><th>Muscle</th><th>Heart</th><th>Ovary</th><th>Uterus</th></tr>
<tr><td class = "geneid">ENSG00000223972</td><td>1</td><td>0</td><td>0</td><td>0</td><td>0</td></tr>
<tr><td class = "geneid">ENSG00000227232</td><td>0</td><td>0</td><td>0</td><td>-1</td><td>1</td></tr>
<tr><td class = "geneid">ENSG00000243485</td><td>0</td><td>0</td><td>0</td><td>0</td><td>0</td></tr>
<tr><td class = "geneid">ENSG00000237613</td><td>0</td><td>-1</td><td>0</td><td>0</td><td>0</td></tr>
</table>
<p> Part of result, p value information for SEGs</p>
<table>
<tr><th>GeneID</th><th>max_exp</th><th>SEG_p_value</th><th>max_SEG_p_value</th><th>p_number</th></tr>
<tr><td class = "geneid">ENSG00000204983</td><td>61264.99</td><td>Inf</td><td>Inf</td><td>1</td></tr>
<tr><td class = "geneid">ENSG00000115386</td><td>36461.64</td><td>Inf</td><td>Inf</td><td>1</td></tr>
<tr><td class = "geneid">ENSG00000091704</td><td>33834.74</td><td>Inf</td><td>Inf</td><td>1</td></tr>
</table>
</section>
<footer>
<p >Copyright ©<a href="http://bioinfo.life.hust.edu.cn/" target=_blank> Guo Lab</a>,<a href="http://life.hust.edu.cn/" target=_blank>College of Life Science and Technology</a>,<a href="http://www.hust.edu.cn" target=_blank> HUST</a>,China</p>
</footer>
</body>
</html>