#Cluster treeview install
#Cluster treeview code
#Cluster treeview download

Once clusterMaker is installed, it will install a Select clusterMaker and click the Install button.įigure 2. Select Analysis under Available for Install. Is available in the Analysis group of plugins. You must be running Cytoscape 2.8.2 or newer.

#Cluster treeview download

To download clusterMaker using the plugin manager, Create New Network with Nested Networks from AttributeĬlusterMaker is available through the Cytoscape plugin manager orīy downloading the source directly from the Cytoscape svn repositoryĬytoscape Subversion Server information, or browse the csplugins/ucsf/scooter/clusterMaker.SCPS (Spectral Clustering of Protein Sequences).Gene expression analysis in a network context.įinding complexes in proteomic and genetic interaction data.įunctional annotation by clustering protein similarity networks. In the BMC Bioinformatics publication: ' clusterMaker: A Multi-algorithm Clustering Plugin for Cytoscape', currently submitted. The other three tutorials describe the steps necessary to reproduce the scenarios described The first tutorial:Ĭluster Maker covers some of the basic featuresĪnd uses of clusterMaker. Open Tutorials web site under the 'Cytoscape Tutorials' section. In addition to this documentation, there are four tutorials available on the 'meta nodes' to allow interactive exploration of the putative familyĪssociations within the Cytoscape network, and results may alsoīe shown as a separate network containing only the intra-cluster edges, or with inter-cluster edges added back.ĬlusterMaker requires version 2.8.2 or newer of CytoscapeĪnd is available from the Cytoscape plugin manager under Hierarchical, k-medoid, AutoSOME, and k-means clusters may beĭisplayed as hierarchical groups of nodes or as heat maps.Īll of the network partitioning cluster algorithms create collapsible MCODE, community clustering (GLAY), SCPS, and AutoSOME for partitioning networks based on similarity K-means for clustering expression or genetic data and MCL, transitivity clustering, affinity propagation, Current clustering algorithms include hierarchical, k-medoid, AutoSOME, and UCSF clusterMaker is a Cytoscape plugin that unifiesĭifferent clustering techniques and displays into a single In this screenshot, theĮxpression data in the sampleData file galFiltered.cys has been clustered using the hierarchical methodĪnd displayed as a heatmap with associated dendrogram. Unless we feel there is a better and cheaper way to indicate 'a-only.war' is only found in a subset of member resources.Figure 1.

#Cluster treeview code

We'd have to look at how JSF code does it and have GWT do the same. Today, I don't think the GWT UI performs the necessary query to even get the (1/2) information. Note the (1/2) indicated there is only '1' resource named 'a-only.war' found anywhere under the '2' members of the group. There is no indication in the tree (icon, label) that 'a-only.war' represents one resource, but 'app.war' represents two resources. We need a way to indicate this in the tree.įor example, suppose I have 2 JBoss EAP instances in the group ('A' and 'B') - they both have 'app.war' deployed, but only 'A' has 'a-only.war' deployed in it. recursive compatible group), its possible that a child node doesn't have the same amount of resources equal to the number of resources in the group.