Tag: Visual Exploration

rNAV 2.0 – Visual Exploration of sRNA mediated Regulatory Network

rNAV 2.0

:: DESCRIPTION

rNAV (for rna NAVigator), is a major evolution of rNAV, a tool for the visual exploration and analysis of bacterial sRNA-mediated regulatory networks. rNAV has been designed to help bioinformaticians and biologists to identify, from lists of thousands of predictions, pertinent and reasonable sRNA target candidates for carrying out experimental validations.

::DEVELOPER

Romain Bourqui

:: SCREENSHOTS

:: REQUIREMENTS

:: DOWNLOAD

rNAV

:: MORE INFORMATION

Citation

Bourqui R, Dutour I, Dubois J, Benchimol W, Thébault P.
rNAV 2.0: a visualization tool for bacterial sRNA-mediated regulatory networks mining.
BMC Bioinformatics. 2017 Mar 23;18(1):188. doi: 10.1186/s12859-017-1598-8. PMID: 28335718; PMCID: PMC5364647.

FluxMap 1.15 – Visual Exploration of Flux Distributions in Biological Networks

FluxMap 1.15

:: DESCRIPTION

FluxMap is an easy to use tool for the advanced visualization of simulated or measured flux data in biological networks. Flux data import is achieved via a structured template basing on intuitive reaction equations. Flux data is mapped onto any network and visualized using edge thickness. Various visualization options and interaction possibilities enable comparison and visual analysis of complex experimental setups in an interactive way.

::DEVELOPER

FluxMap Team

:: SCREENSHOTS

:: REQUIREMENTS

:: DOWNLOAD

 FluxMap

:: MORE INFORMATION

Citation

FluxMap: a VANTED add-on for the visual exploration of flux distributions in biological networks.
Rohn H, Hartmann A, Junker A, Junker BH, Schreiber F.
BMC Syst Biol. 2012 May 1;6:33. doi: 10.1186/1752-0509-6-33.

SpotXplore 20100804 – Cytoscape plugin for Visual Exploration of Hotspot Expression in Gene Regulatory Networks

SpotXplore 20100804

:: DESCRIPTION

SpotXplore is a plug-in for Cytoscape which enhances the visual analysis of gene expression obtained by, e.g., microarrays or the newer RNA-seq techniques in various ways. It enables visualization of multiple conditions or time series by glyphs that encode both expression value and statistical confidence.

::DEVELOPER

Dr. Michel A. Westenberg

:: SCREENSHOTS

:: REQUIREMENTS

:: DOWNLOAD

 SpotXplore

:: MORE INFORMATION

Citation

M. A. Westenberg, J. B. T. M. Roerdink, O. P. Kuipers, S. A. F. T. van Hijum.
SpotXplore: a Cytoscape plugin for visual exploration of hotspot expression in gene regulatory networks.
Bioinformatics, 26(22):2922-2923, 2010.

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