Phylogenetics

This library provides data structures and algorithms to parse, transform and draw phylogenies, perform simulations or statistical inference on evolutionary models.

The full API is available here.

Quickstart

Let's start using phylogenetics in the ocaml interpreter, by calling `utop` or `ocaml` (with `down` installed for instance):

# #require "phylogenetics";;
[...]

Loading a newick tree

Several functions are available in the Phylogenetics.Newick module to parse from a file or a string:

# let t = Phylogenetics.Newick.from_string_exn "((B:0.2,(C:0.3,D:0.4)E:0.5)F:0.1)A;";;
val t : Phylogenetics.Newick.t =
  {Phylogenetics.Newick.name = Some "A"; tags = []; parent_branch = None;
   children =
    [{Phylogenetics.Newick.name = Some "F"; tags = [];
      parent_branch = Some 0.1;
      children =
[...]