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  2. An AIC-based Tool for Data Visualization


MOLPHY: A Computer Program Package for Molecular Phylogenetics

This is the MOLPHY (ProtML) distribution, version 2.3.
Copyright (c) 1992-1996, Jun Adachi & Masami Hasegawa.
All rights reserved.
MOLPHY is a program package for MOLecular PHYlogenetics.

ProtML is a main program in MOLPHY for inferring evolutionary trees from PROTein (amino acid) sequences by using the Maximum Likelihood method.

Programs (C language)

  • ProtML: Maximum Likelihood Inference of Protein Phylogeny
  • NucML: Maximum Likelihood Inference of Nucleic Acid Phylogeny
  • ProtST: Basic Statistics of Protein Sequences
  • NucST: Basic Statistics of Nucleic Acid Sequences
  • NJdist: Neighbor Joining Phylogeny from Distance Matrix

Utilities (Perl)

  • mollist: get identifiers list
  • molrev: reverse DNA sequences
  • molcat: concatenate sequences
  • molcut: get partial sequences
  • molmerge: merge sequences
  • nuc2ptn: DNA -> Amino acid
  • rminsdel: remove INS/DEL sites
  • molcodon: get specified codon sites
  • molinfo: get varied sites
  • mol2mol: MOLPHY format beautifer
  • inl2mol: Interleaved -> MOLPHY
  • mol2inl: MOLPHY -> Interleaved
  • mol2phy: MOLPHY -> Sequential
  • phy2mol: Sequential -> MOLPHY
  • must2mol: MUST -> MOLPHY
  • etc.
MOLPHY is a free software, and you can use and redistribute it. The programs are written in a standard subset of C with UNIX-like OS. The utilities are written in the "Perl" (Ver.4.036) with UNIX-like OS. MOLPHY has been tested on SUN4's (cc & gcc with SUN-OS 4.1.3) and HP9000/700 (cc, c89 & gcc with HP-UX 9.05).
However, MOLPHY has NOT been tested on VAX, IBM-PC, and Macintosh.

NETWORK DISTRIBUTION ONLY: The latest version of MOLPHY is always available by Repository in MOLPHY.


2. An AIC-based Tool for Data Visualization

An AIC-based Tool for Data Visualization

About "An AIC-based Tool for Data Visualization" (in Japanese)

An AIC-based Tool for Data Visualization (in Japanese)