title: 2matrix: A utility for indel coding and phylogenetic matrix concatenation(1.).
abstract: OBJECTIVE
  Phylogenetic analysis of DNA and amino acid sequences requires the creation of files formatted specifically for each analysis package. Programs currently available cannot simultaneously code inferred insertion/deletion (indel) events in sequence alignments and concatenate data sets. •
  
  
  RESULTS
  A novel Perl script, 2matrix, was created to concatenate matrices of non-molecular characters and/or aligned sequences and to code indels. 2matrix outputs a variety of formats compatible with popular phylogenetic programs. •
  
  
  CONCLUSIONS
  2matrix efficiently codes indels and concatenates matrices of sequences and non-molecular data. It is available for free download under a GPL (General Public License) open source license (https://github.com/nrsalinas/2matrix/archive/master.zip).
authors.affiliation: The Graduate Center, City University of New York, 365 Fifth Avenue, New York, New York 10016 USA ; Cullman Program for Molecular Systematics, The New York Botanical Garden, Bronx, New York 10458 USA.
authors.forename: Nelson R
authors.initials: NR
authors.lastname: Salinas
authors.affiliation: Cullman Program for Molecular Systematics, The New York Botanical Garden, Bronx, New York 10458 USA.
authors.forename: Damon P
authors.initials: DP
authors.lastname: Little
keywords: 2matrix; file conversion; indel coding; software