phylogeny analysis

  • Multiple Alignment:
    MUSCLE
    ProbCons
    T-Coffee
    ClustalW

  • Alignment curation:
    Gblocks
    Remove positions with gaps

  • Construction of phylogenetic tree:

  1. Maximum Likelihood
    PhyML
  2. Parsimony
    TNT
  3. Distances
    ProtDist/FastDist + BioNJ
    ProtDist/FastDist + Neighbor
    Bayesian inference
    MrBayes (limit: 30 sequences)
  • Visualisation of phylogenetic tree:
    TreeDyn
    Drawgram
    Drawtree
posted @ 2016-11-15 12:29  liuhui_pine  阅读(189)  评论(0)  编辑  收藏  举报