source: branches/uk_ac_ebi_Tab2MageImporter/html/hybridizations.html @ 522

Last change on this file since 522 was 522, checked in by mbayer, 13 years ago

made a number of tweaks to the interface

File size: 5.2 KB
Line 
1<!DOCTYPE html PUBLIC "-//W3C//DTD HTML 4.01 Transitional//EN" "http://www.w3.org/TR/html4/loose.dtd">
2<html>
3<head>
4<meta http-equiv="Content-Type" content="text/html; charset=ISO-8859-1">
5<title>Tab2MAGE Importer -- Hybridizations</title>
6
7<link rel="stylesheet" type="text/css" href="../jsp/uk/ac/ebi/nugo/plugins/styles.css" />
8
9</head>
10<body>
11
12<h2>Tab2MAGE Importer -- Your Hybridizations</h2>
13Page 3 of 3
14<p>
15
16<form>
17
18<!--  table with the input form -->
19<table cellpadding="15">
20
21  <!-- question 1 -->
22  <tr style="border-color: #6E94B7;border-style: solid;border-width: 1px">
23    <td class="boldText">Microarray platform:</td>
24    <td class="input"><select name="parameter:platform">
25    <option >Affymetrix</option>
26    <option >Agilent</option>
27    <option >AIDA</option>
28    <option >BZScan</option>
29    <option >ChipSkipper</option>
30    <option >GenePix</option>
31    <option >GeneTAC</option>
32    <option >Illumina</option>
33    <option >Imagene</option>
34    <option >QuantArray Biotin</option>
35    <option >QuantArray Cy</option>
36    <option >Spotfinder</option>
37    <option ><i>Custom</i></option>
38    </select></td>
39    <td>The manufacturer of the microarray chip used.</td>
40  </tr>
41
42  <!-- question 2 -->
43  <tr>
44    <td class="boldText">Experimental organism:</td>
45    <td class="input"><input type="text" size="50" name="parameter:organism" value="Solanum tuberosum"/></td>
46    <td>The full scientific name of the experimental organism used.</td>
47  </tr>
48
49  <!-- question 3 -->
50  <tr>
51    <td class="boldText">Number of different arrays designs used:</td>
52    <td class="input"><input type="text" size="3" name="parameter:numDesigns" value="1"/></td>
53    <td>If more than one array design was used in parallel, please specify the number here.</td>
54  </tr>
55
56  <!-- question 4 -->
57  <tr>
58    <td class="boldText">Dye-swap</td>
59    <td class="input">yes <input type="radio" name="parameter:dyeSwap" value="yes"> no <input type="radio"
60      name="parameter:dyeSwap" value="no" checked="checked"> <br>
61     
62    </td>
63    <td>If you used a dye-swap design please indicate this here.</td>
64  </tr>
65
66  <!-- question 5 -->
67  <tr>
68    <td class="boldText">Reference sample</td>
69    <td class="input">yes <input type="radio" name="parameter:refSample" value="yes" > no <input type="radio"
70      name="parameter:refSample" value="no" checked="checked"></td>
71    <td>If you used a reference sample please indicate this here.</td>
72  </tr>
73
74  <!-- question 6 -->
75  <tr>
76    <td class="boldText">Number of treatment groups:</td>
77    <td class="input"><input type="text" size="3" name="parameter:numTreatmentGroups" value="2"/></td>
78    <td>The number of permutations of factor values. <p>
79    Example: an experiment with 2 factors and 3 factor values in each will have 6 treatment groups (2 X 3).
80    </td>
81  </tr>
82
83  <!-- question 7 -->
84  <tr>
85    <td class="boldText">Experimental factors:
86    </td>
87    <td class="input"><textarea rows="7" cols="35" name="parameter:expFactors">Strain(mutant,wildtype)</textarea></td>
88    <td>Please list all experimental factors and value ranges using the following format (one per
89    line):<br>
90    <i>Factor 1(value1,value2,...valueN)<br></i>
91    <p>Example: <i><br>
92    Compound(aspirin,ibuprofen,acetaminophen) <br>
93    Dose(control,low,medium,high)</i></td>
94  </tr>
95
96  <!-- question 8 -->
97  <tr>
98    <td class="boldText">Number of subjects per group:</td>
99    <td class="input"><input type="text" size="3" name="parameter:numReplicates" value="2"/></td>
100    <td>This is the number of biological replicates in each treatment group.</td>
101  </tr>
102 
103  <!-- question 9 -->
104  <tr>
105    <td class="boldText">Target tissues:</td>
106    <td class="input"><textarea rows="2" cols="35" name="parameter:tissues">stem</textarea></td>
107    <td>List all target tissues (as a comma separated list).<br>
108    Example: liver,heart,adipose tissue</td>
109  </tr>
110 
111  <!-- question 10 -->
112  <tr>
113    <td class="boldText">Sample pooling:</td>
114    <td class="input">yes <input type="radio" name="parameter:pooling" value="yes"> no <input type="radio"
115      name="parameter:pooling" value="no" checked="checked"></td>
116    <td>If the samples were pooled please indicate this here.</td>
117  </tr>
118
119
120  <!-- file upload -->
121  <tr>
122    <td class="boldText">Zip file:</td>
123
124    <td class="input">
125    <table class="noBorder" border="0" cellspacing="0" cellpadding="0">
126      <tr class="noBorder" valign="middle">
127     
128        <td ><input type="text" name="path" size="40" value="">&nbsp;</td>
129       
130        <td>
131        <div class="buttonclass"
132          onmouseover="this.className='buttonclass_hover';"
133          onmouseout="this.className='buttonclass';"
134          onclick="browseOnClick()">
135        <div class="buttonclass_inner">
136
137        <table class="noBorder" cellspacing="0" cellpadding="0">
138          <tr class="noBorder">
139            <td>&nbsp;&nbsp;<img src="/base/images/browse.png" border="0"></td>
140            <td>Browse&hellip;</td>
141          </tr>
142        </table>
143
144        </div>
145        </div>
146        </td>
147       
148      </tr>
149    </table>
150    </td>
151
152    <td>Please select the zip file on your local disk that contains the data files for import.
153   All files must be of the same data format (e.g. Genepix or Affymetrix etc.).</td>
154  </tr>
155
156
157
158</table>
159
160<p>
161<table class="noBorder" width="100%">
162<tr class="noBorder" ><td class="centered">
163<input type="submit"  value="Run Import"/>
164</td>
165</tr>
166</table>
167
168
169
170</body>
171</html>
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