CyNetworkBMA: A Cytoscape App for Inferring Gene Regulatory Networks

Inference of gene networks from expression data is an important problem in computational biology. Many algorithms have been proposed for solving the problem efficiently. However, many of the available implementations are programming libraries that require users to write code, which limits their accessibility

Additinal file 3

Generated edge list. The CyNetworkBMA output consisting of a list of edges and their probabilities that represent a gene network generated from the example DREAM4 input data set (available as Additional file 2). This output file corresponding to Additional file 3 is a text file consisting of three columns: parent, child, posterior probabilities. Each line represents a directed edge from parent node to child node with the posterior probability in the third column. We provide this file so that the user can verify the examples shown in this manuscript. (CSV 345 kb

Additinal file 1

User Manual. This document provides screen shots and step-by-step guide for installing and using CyNetworkBMA. (PDF 157 kb