Cytoscape test4: Difference between revisions
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</p> | </p> | ||
<div style="width: 50%; height:600px; float: left;"> | |||
<div id="cytoscapeweb"> | |||
Cytoscape Web will replace the contents of this div with your graph. | Cytoscape Web will replace the contents of this div with your graph. | ||
</div> | </div> | ||
<p />LEGEND: <span style="background-color: #0099ff;">TF ()</span>, <span style="background-color: #ff9900;">MOTIF []</span>, | |||
<span style="background-color: #0099ff;">MOTIF->TF</span>, <span style="background-color: #ff9900;">TF->MOTIF</span> | |||
</div> | |||
<div id="tabs" style="width: 48%; height:600px; float: right;"> | |||
<ul> | |||
<li><a href="#style_panel">Style</a></li> | |||
<li><a href="#filter_panel">Filter</a></li> | |||
<li><a href="#properties_panel">Data Display</a></li> | |||
</ul> | |||
<div id="style_panel"> | <div id="style_panel"> | ||
< | <table> | ||
<tr><th>Layout:</th></tr> | |||
<tr><td></td> | |||
<td> | |||
<select id="cyto_layout" class="ui-button ui-widget ui-state-default ui-corner-all ui-button-text-only"> | |||
<option value="Preset">Preset</option> | |||
<option value="ForceDirected">Force Directed</option> | |||
<option value="Circle">Circle</option> | |||
<option value="Radial">Radial</option> | |||
<option value="Tree">Tree</option> | |||
</select> <button id="cyto_recalc" style="width: 32px; height: 32px;">(recalculate)</button> | |||
</td></tr> | |||
<tr><th>Labels:</th></tr> | |||
<tr><td></td><td><input type="checkbox" id="cyto_node_labels" checked> Nodes</td></tr> | |||
<tr><td></td><td><input type="checkbox" id="cyto_edge_labels"> Edges</td></tr> | |||
</table> | |||
</div> | </div> | ||
<div id="filter_panel"> | <div id="filter_panel"> | ||
<table> | <table> | ||
<tr><th>Z-Score filter:</th><tr> | <tr><th>Z-Score filter:</th><tr> | ||
<tr><td><span id="cyto_zscore_min">0.00</span> </td><td> <div id="slider1" class="sliderbar"></div> </td><td> <span id="cyto_zscore_max">0.00</span></td></tr> | <tr><td></td><td id="data_bar" style="position: relative;"></td><td></td></tr> | ||
<tr><td></td><td><input type="text" id="cyto_zscore_filter_min" value="0" style="float: left;"/> <input type="text" id="cyto_zscore_filter_max" value="100" style="float: right;"/></td><td></td></tr> | <tr valign="bottom"><td style="text-align: right;" ><span id="cyto_zscore_min">0.00</span> </td><td > <div id="slider1" class="sliderbar"></div> </td><td> <span id="cyto_zscore_max">0.00</span></td></tr> | ||
<tr><td></td><td valign="top" ><input type="text" id="cyto_zscore_filter_min" value="0" style="float: left; width: 35px;"/> <input type="text" id="cyto_zscore_filter_max" value="100" style="float: right; width: 35px;"/></td><td></td></tr> | |||
<tr><th>Show nodes:</th><tr> | |||
<tr><td></td><td><input type="checkbox" id="cyto_edges_binds_to" checked>TF->MOTIF</input> <input type="checkbox" id="cyto_edges_promotes" checked>MOTIF->TF</input></td><td></td></tr> | |||
<tr><th>Show edges:</th><tr> | |||
<tr><td></td><td><input type="checkbox" id="cyto_nodes_tf_src" checked>Source TF</input> <input type="checkbox" id="cyto_nodes_tf" checked>Target TF</input> <input type="checkbox" id="cyto_nodes_motif" checked>MOTIF</input></td><td></td></tr> | |||
</table> | |||
</div> | </div> | ||
<div id="properties_panel" style="font-size: x-small; overflow-y:scroll; height: 540px;"> | |||
<div> | |||
<table id="nodes_list" border="1" width="100%" class="wikitable"> | |||
</table> | |||
</div> | |||
<div> | |||
<table id="edges_list" border="1" width="100%" class="wikitable"> | |||
</table> | |||
</div> | |||
</div> | </div> | ||
</div> | |||
<script src="/resource_browser/nwfiles/jquery.nouislider.min.js"></script> | |||
<link href="/resource_browser/nwfiles/nouislider.css" rel="stylesheet"> | |||
<script src="/ | <!-- JQuery UI --> | ||
<link href="/ | <script type="text/javascript" src="https://ajax.googleapis.com/ajax/libs/jqueryui/1.8.18/jquery-ui.min.js"></script> | ||
<link href="http://ajax.googleapis.com/ajax/libs/jqueryui/1.8.10/themes/base/jquery-ui.css" rel="stylesheet" /> | |||
<link href="http://ajax.googleapis.com/ajax/libs/jqueryui/1.8.10/themes/redmond/jquery-ui.css" rel="stylesheet" /> | |||
<!-- JSON support for IE (needed to use JS API) --> | <!-- JSON support for IE (needed to use JS API) --> | ||
Revision as of 10:15, 10 May 2012
FF:10717-109I6, TF to Motif to TF network
Mouseover nodes and edges to see attributes. Motifs are shown in orange, TFs are shown in blue. Promoter and z-score are attributes of the Motif to TF edges (blue arrow). TF to Motif edges are shown in orange.
Motifs shown are the top (maximum 30) motifs in the sample. TFs shown have at least one CAGE promoter with at at least 10 TPM expression (RLE normalized) in the sample. Edges shown have a z-score of at least 1.5 (based on correlation between motif activity and promoter expression).
Cytoscape Web will replace the contents of this div with your graph.
LEGEND: TF (), MOTIF [], MOTIF->TF, TF->MOTIF
| Layout: | |
|---|---|
| Labels: | |
| Nodes | |
| Edges |
| Z-Score filter: | ||
|---|---|---|
| 0.00 | 0.00 | |
| Show nodes: | ||
| TF->MOTIF MOTIF->TF | ||
| Show edges: | ||
| Source TF Target TF MOTIF |
