PAMLX: a graphical user interface for PAML

Bo Xu; Ziheng Yang

doi:10.1093/molbev/mst179

PAMLX: a graphical user interface for PAML

Mol Biol Evol. 2013 Dec;30(12):2723-4. doi: 10.1093/molbev/mst179. Epub 2013 Oct 7.

Authors

Bo Xu¹, Ziheng Yang

Affiliation

¹ Center for Computational Genomics, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing, China.

PMID: 24105918
DOI: 10.1093/molbev/mst179

Abstract

This note announces pamlX, a graphical user interface/front end for the paml (for Phylogenetic Analysis by Maximum Likelihood) program package (Yang Z. 1997. PAML: a program package for phylogenetic analysis by maximum likelihood. Comput Appl Biosci. 13:555-556; Yang Z. 2007. PAML 4: Phylogenetic analysis by maximum likelihood. Mol Biol Evol. 24:1586-1591). pamlX is written in C++ using the Qt library and communicates with paml programs through files. It can be used to create, edit, and print control files for paml programs and to launch paml runs. The interface is available for free download at http://abacus.gene.ucl.ac.uk/software/paml.html.

Keywords: molecular evolution; phylogenetics; software.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Computational Biology / methods*
Databases, Genetic
Evolution, Molecular
Internet
Likelihood Functions
Phylogeny*
Software*
User-Computer Interface*

Grants and funding

Biotechnology and Biological Sciences Research Council/United Kingdom