Iowa State University Capstones, Theses and Retrospective Theses and Dissertations Dissertations 2007 Suffix trees and suffix arrays in primary and secondary storage Pang Ko Iowa State University Follow this and additional works at: https://lib.dr.iastate.edu/rtd Part of the Bioinformatics Commons, and the Computer Sciences Commons Recommended Citation Ko, Pang, "Suffix trees and suffix arrays in primary and secondary storage" (2007). Retrospective Theses and Dissertations. 15942. https://lib.dr.iastate.edu/rtd/15942 This Dissertation is brought to you for free and open access by the Iowa State University Capstones, Theses and Dissertations at Iowa State University Digital Repository. It has been accepted for inclusion in Retrospective Theses and Dissertations by an authorized administrator of Iowa State University Digital Repository. For more information, please contact
[email protected]. Suffix trees and suffix arrays in primary and secondary storage by Pang Ko A dissertation submitted to the graduate faculty in partial fulfillment of the requirements for the degree of DOCTOR OF PHILOSOPHY Major: Computer Engineering Program of Study Committee: Srinivas Aluru, Major Professor David Fern´andez-Baca Suraj Kothari Patrick Schnable Srikanta Tirthapura Iowa State University Ames, Iowa 2007 UMI Number: 3274885 UMI Microform 3274885 Copyright 2007 by ProQuest Information and Learning Company. All rights reserved. This microform edition is protected against unauthorized copying under Title 17, United States Code. ProQuest Information and Learning Company 300 North Zeeb Road P.O. Box 1346 Ann Arbor, MI 48106-1346 ii DEDICATION To my parents iii TABLE OF CONTENTS LISTOFTABLES ................................... v LISTOFFIGURES .................................. vi ACKNOWLEDGEMENTS. .. .. .. .. .. .. .. .. .. ... .. .. .. .. vii ABSTRACT....................................... viii CHAPTER1. INTRODUCTION . 1 1.1 SuffixArrayinMainMemory .