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Langue: en

Version: November 7, 2001 (ubuntu - 07/07/09)

Section: 1 (Commandes utilisateur)


MolPhy - program package for MOLecular PHYlogenetics

Molphy consists of several programs:

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 Sequence
njdist - Neighbor Joining Phylogeny from Distance Matrix
totalml - Total ML Inference of Molecular Phylogeny


protml [switches] sequence_file [topology_file]
nucml [switches] sequence_file [topology_file]
protst [switches] sequence_file
nucst [switches] sequence_file
njdist [switches] distance_matrix_file
totalml [switches] LLS_files


This is the Debian GNU/Linux version of 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.

Each single program has a -h switch which shows some help.


This manual page was written by Andreas Tille <>, for the Debian GNU/Linux system (but may be used by others).
La Terre ferme, tant pis, on ira ailleurs.