MEGA CC: computing core of molecular evolutionary genetics analysis program for automated and iterative data analysis
UNLABELLED There is a growing need in the research community to apply the molecular evolutionary genetics analysis (MEGA) software tool for batch processing a large number of datasets and to integrate it into analysis workflows. Therefore, we now make available the computing core of the MEGA software as a stand alone executable (MEGA CC) along with an analysis prototyper (MEGA Proto) MEGA CC provides users with access to all the computational analyses available through MEGA's graphical user interface version. This includes methods for multiple sequence alignment, substitution model selection, evolutionary distance estimation, phylogeny inference, substitution rate and pattern estimation, tests of natural selection and ancestral sequence inference. Additionally, we have upgraded the source code for phylogenetic analysis using the maximum likelihood methods for parallel execution on multiple processors and cores. Here, we describe MEGA CC and outline the steps for using MEGA CC in tandem with MEGA Proto for iterative and automated data analysis. AVAILABILITY http:/www.megasoftware.net/
Bioinform.