Build a phylogenetic tree

  1. Collect a list of needed sequences.
  2. Do multiple sequence alignment, for example mafft (mafft –localpair –maxiterate 1000 a.fa > a.ali).
  3. Build a phylogenetic tree, for example FastTree (FastTree a.ali > a.nwk).
  4. Visualize the phylogenetic tree, for the iToL (http://itol.embl.de/) web server.
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