Cytoscape test3: Difference between revisions
From FANTOM5_SSTAR
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</p> | </p> | ||
<div id="cytoscapeweb" style="width:800px;height:600px"> | <div id="cytoscapeweb" style="width:800px;height:600px;"> | ||
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> | ||
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<h3>Style</h3> | <h3>Style</h3> | ||
Layout: <select id="cyto_layout"> | Layout: <select id="cyto_layout"> | ||
<option value="Preset">Preset</option> | |||
<option value="ForceDirected">Force Directed</option> | <option value="ForceDirected">Force Directed</option> | ||
<option value="Circle">Circle</option> | <option value="Circle">Circle</option> | ||
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<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><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> | ||
</table> | </table> | ||
Show edges: < | Show edges: <input type="checkbox" id="cyto_edges_binds_to" checked>TF->MOTIF</input> <input type="checkbox" id="cyto_edges_promotes" checked>TF->MOTIF</input> | ||
<br />Show nodes: <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> | |||
</div> | </div> | ||
<div id="properties_panel" style="font-size: x-small; overflow-y:scroll; height: 300px;"> | <p /><div id="properties_panel" style="font-size: x-small; overflow-y:scroll; height: 300px;"> | ||
<div> | <div> | ||
<table id="nodes_list" border="1" width="100%" class="wikitable"> | <table id="nodes_list" border="1" width="100%" class="wikitable"> | ||
Revision as of 17:46, 8 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.
Style
Layout: (recalculate)Filter
| Z-Score filter: | ||
|---|---|---|
| 0.00 | 0.00 | |
Show nodes: Source TF Target TF MOTIF
| Node | Type |
|---|
| Source TF | Target TF | Promoter | Z-Score |
|---|
