MOLPHY MOLPHY is a program package for MOLecular PHYlogenetics. It contains several C and Perl programs. The C programs are: 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 The Perl Utilities are: 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 3rd(1st,2nd) codons molinfo: get (non)infomation sites mol2mol: MOLPHY format beautifer inl2mol: Interleaved -> MOLPHY mol2inl: MOLPHY -> Interleaved mol2phy: MOLPHY -> Sequential phy2mol: Sequential -> MOLPHY must2mol: MUST -> MOLPHY

Current Version:   2.2 (2.3 beta 3) License Type:   Free

Home Site: ftp://sunmh.ism.ac.jp/pub/molphy http://evolution.bmc.uu.se/~thomas/mol_linux/molphy/ (Linux binary) Source Code Availability:   Yes Available Binary Packages: Debian Package:   No RedHat RPM Package:   No Other Packages:   Yes Targeted Platforms: UNIX-like OS, Tested on SUN-OS, HP-UX, Linux Software/Hardware Requirements: C compiler and Perl

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