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Copyright (C) 2003-2009 Institute for Systems Biology Seattle, Washington, USA. This library is free software; you can redistribute it and/or modify it under the terms of the GNU Lesser General Public License as published by the Free Software Foundation; either version 2.1 of the License, or (at your option) any later version. This library is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU Lesser General Public License for more details. You should have received a copy of the GNU Lesser General Public License along with this library; If not, see <http://www.gnu.org/licenses/>. ======================================================================= R.Lichen is a R package for visualizing networks in the web browser. Basic useage is: bionetwork(adjList,list(height=height, width=width,padding=80 ... additional options)) To visualize a graphNEL n: adjList = matrix(unlist(strsplit(edgeNames(n),"~")),ncol=2,byrow=TRUE) adjList = cbind(adjList,TRUE) adjList=cbind(1:nrow(adjList),adjList) colnames(adjList) = c("edge_id","interactor1","interactor2","directed") bionetwork(adjList,list(layout="extendedForceDirected", height=height, width=width,padding=80)) It is in a pre release state, please see test.R, gbmbase.R, stresstest.R for examples of its use and http://github.com/ryanbressler/Lichen for further documentation of options that may be passed in the options list.