EvalMSA: A Program to Evaluate Multiple Sequence Alignments and Detect Outliers

8 páginas, 3 figuras, 2 tablas.We present EvalMSA, a software tool for evaluating and detecting outliers in multiple sequence alignments (MSAs). This tool allows the identification of divergent sequences in MSAs by scoring the contribution of each row in the alignment to its quality using a sum-of-pair-based method and additional analyses. Our main goal is to provide users with objective data in order to take informed decisions about the relevance and/or pertinence of including/retaining a particular sequence in an MSA. EvalMSA is written in standard Perl and also uses some routines from the statistical language R. Therefore, it is necessary to install the R-base package in order to get full functionality. Binary packages are freely available from http://sourceforge.net/projects/evalmsa/for Linux and Windows.This study was supported by Ministerio de Economía y Competitividad, Spanish Government (projects BFUFU2011-24112 and BFUFU2014-58656-R) and Dirección General de Salud Pública (Generalitat Valenciana, Spain). ACAC-O was a recipient of a Formación de Profesorado Universitario predoctoral fellowship from Ministerio de Educación, Spanish Government and was awarded with a grant Ayuda de Inicio a la Investigación from Universidad de Valencia. The authors confirm that the funders had no influence over the study design, data collection and analysis, decision to publish, content of the article, or selection of this journal.Peer reviewe