simulation of molecular data under diverse evolutionary scenarios分子的数据在不同的进化场景模拟.pdfVIP

Education Simulation of Molecular Data under Diverse Evolutionary Scenarios Miguel Arenas1,2* 1 Computational and Molecular Population Genetics Lab (CMPG), Institute of Ecology and Evolution, University of Bern, Bern, Switzerland, 2 Swiss Institute of Bioinformatics, Lausanne, Switzerland This is an original PLoS Computational been developed to handle very complex slower simulations due to the need to re- Biology tutorial. scenarios (e.g., [8,9]) and efficient algo- calculate the matrix for each branch. rithms have been incorporated in order to accommodate large datasets in response to Main Software Implementations Introduction the increasing amount of genome-wide data (e.g., [10]). Thus, the importance of A number of programs have been This study is intended for evolutionary simulations continues to grow in order to developed to simulate nucleotide, codon, biologists interested in strategies for the deal with these new challenges. and amino acid sequences evolution. simulation of molecular data under diverse Although several studies have already evolutionary scenarios. It begins with a Approaches for the Simulation reviewed these software tools (e.g., [13– brief background on simulation approach- of Molecular Data 17]), such revisions quickly become obso- es and describes some of the most