PhyloNet Analyze reticulate evolutionary relationships with this application.
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PhyloNet Tags

analysis transfer Analyze build relationships evolutionary process Evolutionary Algorithm create evolutionary algorithm develop evolutionary algorithm evolutionary tree specify evolutionary algorithm evolutionary Evolutionary Research System Evolutionary Computation evolutionary clade evolutionary simulation gene transfer store phylogenetic network simulate evolutionary genetics evolutionary trace method evolutionary pattern analysis evolutionary biology tool evolutionary data viewer analyze evolutionary data WSDL relationships relationships keyman amharic software aplikasi untuk edit www.nokia n72 software.com wifi password cracker china mobile pc free download game lg gd350 pc www.soft freez driver remover weather docklet vista screen recorder gold free antivirus setup

PhyloNet Description

PhyloNet is a handy, easy to use tool specially designed to offer users a suite of tools for reconstructing and analyzing reticulate (non-treelike) evolutionary relationships. In particular, the software package includes features for inferring horizontal gene transfer from a pair of species/gene trees, and detecting interspecific recombination breakpoints in a sequence alignment. Further, it has the capabilities for reading/storing phylogenetic networks, and comparing phylogenetic networks topologies. As the algorithms for phylogenetic network reconstruction and evaluation make use of algorithmic techniques from the domain of phylogenetic trees, the package also contains several tree-oriented features, such as modules for computing the maximum agreement subtrees, the Robinson-Foulds distance measures, etc. Main features: MAST - Maximum Agreement Subtree RF - Robinson-Foulds/Symmetric Difference tree measure RIATAHGT - a heuristic for detecting HGT events from a pair of species/gene trees LCA - least common ancestor of a set of nodes in a tree RECOMP - a window-based method for detecting interspecific recombination breakpoints CHARNET - a tool for computing clusters, trees and tripartitions in a network CMPNETS - a tool for computing the distance between two networks NETPARS - a tool for scoring the parsimony of phylogenetic networks COUNTCOAL - a tool for enumerating all valid coalescent scenarios of a gene within the branches of a species tree GENCPLEX - a tool for generating an MILP formulation that can be solved by CPLEX for a species trees and a set of gene trees GENST - a tool for generating species tree topoloties based on maximal sets of compatible clusters. COMPUTE_ST (this tool is a Perl script) - for reconstructing the species tree from gene trees under the coalescent. INFER_ST - for inferring the species tree from gene trees. Methods contained include MDC, MDC with time, GLASS, extended Majority Consensus and Democratic Vote. DEEP_COAL__COUNT - for counting the number of extra lineages contributed by a set of gene trees and species trees SIM_GTINNETWORK - for simulating gene trees under the phylogenetic network model in the Yu et al. Syst Biol 2010 paper

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