Cytoscape test3: Difference between revisions
From FANTOM5_SSTAR
No edit summary |
No edit summary |
||
| Line 27: | Line 27: | ||
<select id="cyto_layout" class="ui-button ui-widget ui-state-default ui-corner-all ui-button-text-only"> | <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="Preset">Preset</option> | ||
<option value="ForceDirected">Force Directed</option> | <option value="ForceDirected" selected>Force Directed</option> | ||
<option value="Circle">Circle</option> | <option value="Circle">Circle</option> | ||
<option value="Radial">Radial</option> | <option value="Radial">Radial</option> | ||
| Line 38: | Line 38: | ||
</div> | </div> | ||
<div id="filter_panel"> | <div id="filter_panel"> | ||
<div> | |||
<label class="filter">Show edges:</label> | <label class="filter">Show edges:</label> | ||
<input type="checkbox" id="cyto_edges_binds_to" checked>TF->MOTIF</input> | <div id="edge_type_filter"> | ||
<input type="checkbox" id="cyto_edges_binds_to" value="binds_to" checked>TF->MOTIF</input> | |||
<br /><input type="checkbox" id="cyto_edges_promotes" value="promotes" checked>Promoters</input> | |||
< | </div> | ||
<div id="z_filter" class="slider">Promoter Z-Score filter:</div> | |||
<div id="nodes_type_filter" style="display: none;"> | |||
<label class="filter">Show nodes:</label> | |||
<input type="checkbox" id="cyto_nodes_tf_src" value="tf" checked>Source TF (Outdegree > 0)</input> | |||
<br /><input type="checkbox" id="cyto_nodes_tf" value="tf" checked>Target TF (Outdegree = 0)</input> | |||
<br /><input type="checkbox" id="cyto_nodes_motif" value="motif" checked>MOTIF</input> | |||
</div> | |||
<p /> | <p /> | ||
<div id="degree_filter" class="slider">Motif degree filter:</div> | |||
<div id="tf_indegree_filter" class="slider">TF indegree filter:</div> | |||
<div id="tf_outdegree_filter" class="slider">TF outdegree filter:</div> | |||
</div> | |||
</div> | </div> | ||
<div id="properties_panel_nodes" class="properties_panel"> | <div id="properties_panel_nodes" class="properties_panel"> | ||
Revision as of 11:20, 20 July 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).
