DeDaL

DeDaL is a Cytoscape app that enables the creation of biological network layouts based on multidimensional data. It uses linear and non-linear algorithms of dimension reduction to produce data-driven network layouts based on molecular profiles such as gene expression. DeDaL includes several data pre-processing and layout post-processing steps such as continuous morphing between two arbitrary network layouts and aligning one network layout with respect to another one by rotating and mirroring. This allows the creation of insightful network layouts representing both structural network features and correlation patterns in multivariate data. DeDaL is a convenient tool for applying data dimensionality reduction methods and for designing insightful data displays built within the Cytoscape environment.