Modified k-Tuple Method for the Construction of Phylogenetic Trees

Geetika, M. Hanmandlu, Ashish Sani, D. Gaur
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引用次数: 6

Abstract

This study proposes an extension of k-tuple method which utilizes the ratio of frequency of common sub words of length k to compare two sequences. The proposed method has two stages. stage 1 extracts feature from the sequence to obtain distance matrix and stage 2 obtains clusters from similarity matrix. The proposed method is tested on four datasets and the results are compared with those of k-tuple and tree generated using clustalw. Purity of tree and symmetric distance between the tree generated from proposed method and alignment based methods have also been computed. The results of proposed method are also compared with Composition Vector and k-tuple.
构建系统发育树的改进k元组方法
本文提出了一种扩展的k元组方法,利用长度为k的公共子词的频率比来比较两个序列。该方法分为两个阶段。阶段1从序列中提取特征得到距离矩阵,阶段2从相似性矩阵得到聚类。该方法在4个数据集上进行了测试,并与k元组和树的结果进行了比较。计算了该方法生成的树的纯度和树与基于对齐方法生成的树之间的对称距离。并与组合向量和k元组进行了比较。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
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