package phylogenetics

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Algorithms and datastructures for phylogenetics

Install

Dune Dependency

github.com Readme Edit opam file Versions (4)

Authors

Maintainers

P

philippe.veber@gmail.com

Sources

phylogenetics-0.3.0.tbz

sha256=de867d7cc017a8e434dab43ef16f0f6495973892cd7b6a8446b18e79393704a8

sha512=0209538caf94be47eabcaa25399c54849bd4fa0fc79e0579acee27f46ef3b72aa50e17bdb48fed8e86674d4caee6c1c4c423833a2757db12e2a6cc28234510de

doc/phylogenetics/Phylogenetics/Newick/index.html

Module `Phylogenetics.Newick`Source

New Hampshire tree (a.k.a. newick) format parsing

see https://evolution.genetics.washington.edu/phylip/newicktree.html

include module type of Newick_ast

Sourcetype tag = string * string

Sourcetype t = {

name : string option;
tags : tag list;
parent_branch : float option;
children : t list;

}

Sourcetype error_desc = {

offset : int;
line : int;
column : int;
msg : string;

}

Sourceval string_of_error_desc : error_desc -> string

Sourcetype error = [

| `Newick_parser_error of error_desc

]

Source

val mkerror : 
  Lexing.lexbuf ->
  string ->
  [> `Newick_parser_error of error_desc ]

Sourceval string_of_error : [< `Newick_parser_error of error_desc ] -> string

Sourceval from_file : string -> (t, [> error ]) result

Sourceval from_file_exn : string -> t

Sourceval from_string : string -> (t, [> error ]) result

Sourceval from_string_exn : string -> t

Source

val of_tree : 
  ?node_id:('a -> string option) ->
  ?node_tags:('a -> tag list) ->
  ?leaf_id:('b -> string option) ->
  ?leaf_tags:('b -> tag list) ->
  ?branch_length:('c -> float option) ->
  ?parent_branch:float ->
  ('a, 'b, 'c) Tree.t ->
  t

Sourceval to_string : t -> string

Sourceval to_file : t -> string -> unit

Sourcemodule Tree_repr : sig ... end