Packages

phylonet
phylonet.algorithms.bipartitemaching
phylonet.algorithms.pairalignment
phylonet.algorithms.shortestpath
phylonet.app
phylonet.app.controller
phylonet.app.controller.datum
phylonet.app.model
phylonet.app.model.datum
phylonet.app.tool
phylonet.app.tool.charnet
phylonet.app.tool.cmpnets
phylonet.app.tool.component
phylonet.app.tool.countcoal
phylonet.app.tool.inferst
phylonet.app.tool.inferst.subpanel
phylonet.app.tool.lca
phylonet.app.tool.mast
phylonet.app.tool.netpars
phylonet.app.tool.recomp
phylonet.app.tool.rf
phylonet.app.tool.riatahgt
phylonet.app.util
phylonet.app.view
phylonet.app.view.datum
phylonet.bits
phylonet.cmdline
phylonet.cmdline.tool
phylonet.coalescent
phylonet.compatibility
phylonet.consensus
phylonet.fitchpars
phylonet.graph.io
phylonet.graph.model
phylonet.graph.model.sgi
phylonet.heaps
phylonet.ilp
phylonet.lca	This package contains implementations of algorithms that solve the Lowest Common Ancestor Retrieval (LCA) Problem.
phylonet.mast	This package contains an implementations of algorithms that solve the Maximum Agreement Subtree (MAST) Problem.
phylonet.maxclique
phylonet.mct
phylonet.network.characterization
phylonet.network.gtdistribution
phylonet.network.io
phylonet.network.model
phylonet.network.model.bni
phylonet.network.util
phylonet.nj
phylonet.recomp	This package contains an implementation of the RECOMP method - a technique for detecting regions of recombination among a set of sequences.
phylonet.recomp.comparator
phylonet.riatahgt
phylonet.riatahgt.viewer
phylonet.rpt
phylonet.rpt.io
phylonet.sequence.io
phylonet.sequence.model
phylonet.simulator
phylonet.symmdiff	This package contains implementations of the Symmetric Difference that is calculated on pairs of trees.
phylonet.tree.io
phylonet.tree.model
phylonet.tree.model.sti
phylonet.tree.util
phylonet.tree.view.swing
phylonet.util