Software

  • jMODELTEST 2: High Performance Computing selection of models of nucleotide substitution. (NEW! jmodeltest.org server)
  • PROTTEST 3: High Performance Computing selection of empirical models of aminoacid replacement  (prottest2 server).
  • CoalEvol: Simulation of DNA/codon/aa sequences under different population models
  • SGWE: Simulation of genome-wide evolution using CoalEvol.
  • CodABC: coestimation of recombination, substitution and dN/dS using approximate Bayesian computation.
  • ALTER WEB SERVER: Program-oriented alignment format converter.
  • NETTEST WEB SERVER:  Characterization of explicit networks.
  • GENDECODER WEB SERVER: Genetic code assignment for metazoan mitochondrial genomes.
  • NETRECODON: Simulation of coding sequences with intracodon recombination, migration and growth.
  • GEODIS:  Nested clade phylogeographic analysis (NCPA).
  • TREESCAN: Genotype/phenotype association test upon a haplotype tree.
  • TCS: Reconstruction of phylogenetic networks from DNA sequences using statistical parsimony.
  • MITOBANK: Retrieval and gene-parsing of mitochondrial genomes.

  • RDP is a Windows program developed by Darren Martin for the detection of recombination from DNA alignments. It includes several methods, like RDP, MaxChi, Chimaera, Geneconv, Bootscan and Siscan. Current version is Beta 0.8