More posts like this
-
Visualizing module eigene relationships in cytoscape
written by MARK •I have used WGCNA to compute signed co-expression gene modules in an RNA data set. I would like to visualize the correlations between the Module …
-
Cytoscape Diffusion Algorithm
written by Nazifa Ahmed •Hi, Can anyone tell me what diffusion algorithm is used by the tool diffusion in Cytoscape? Also, I found a plugin genemania in Cytoscape, does …
-
How to depict edges as an indicator of no. of frames in which two residue interact in Residue inte…
written by Anjali •I am using RIP-MD tool to generate Residue interaction network from MD trajectories. the tool generates GML files which I load in Cytoscape. I want …
-
Cytoscape - How to filter when starting from a complete network, built from a gene-to-gene adjacenc…
written by JP •Greetings, I'm trying to visualize a gene-to-gene network, generated from a gene-to-gene adjacency matrix that I loaded into Cytoscape via the "aMatReader" plugin. The original …
-
customized visualization of edges between groups in cytoscape
written by shangyuan5000 •Hi, I have a complicated gene network. To make the network easier, I grouped and collapse some of the genes with similar functions in Cytoscape …
-
GeneMANIA Network Creation
written by mlai2567 •Hello all, I am currently using the GeneMANIA Cytoscape plugin to create network interaction maps based off of my RNA-seq data. I am currently debating …
-
Cytoscape: select edges that are the interactions between two networks
written by Xiaokang •I have two networks: A and B. B is a subset of A. I'm now working on A, and I'd like to select all the …
-
How can I change the color and font size for just one node in cytoscape3 ?
written by OmidHow can I change the color and font size **just one node** in cytoscape3 ? In style section, when I edit one node, the Cytoscape …
-
How to assign manually biological function into nodes in Cytoscape?
written by OmidI have a network created by cytoscape including 354 genes(nodes) and the genes have connected by different edges(pathway, PPI, genetic interaction, domain and co-localization). I …
-
How to increase cytoscape memory?
written by OmidHi, I am working with cytoscape3.1.0(windows 32bit). To work on huge network I need to increase cytoscape memory. According to cytoscape manual I tried to …
Doesn't this plugin use Cytoscape styles ?
we will have GenMANIA result in cytoscape style but unfortunately I cannot edit the edge color or thickness