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SeqMaT: A sequence manipulation tool for phylogenetic analysis

By Pavan Kumar Attaluri, Mary C Christman, Zhengxin Chen and Guoqing Lu

Abstract

Most bioinformatics tools require specialized input formats for sequence comparison and analysis. This is particularly true for molecular phylogeny programs, which accept only certain formats. In addition, it is often necessary to eliminate highly similar sequences among the input, especially when the dataset is large. Moreover, most programs have restrictions upon the sequence name. Here we introduce SeqMaT, a Sequence Manipulation Tool. It has the following functions: data format conversion,sequence name coding and decoding,redundant and highly similar sequence removal, anddata mining utilities. SeqMaT was developed using Java with two versions, web-based and standalone. A standalone program is convenient to manipulate a large number of sequences, while the web version will guarantee wide availability of the tool for researchers and practitioners throughout the Internet

Topics: Software
Publisher: Biomedical Informatics
OAI identifier: oai:pubmedcentral.nih.gov:3044431
Provided by: PubMed Central

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Citations

  1. (2002). [PMID: 12368254] Edited by P Kangueane Citation: Attaluri et al.

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