Suffix Trees and Suffix Arrays
نویسنده
چکیده
Iowa State University 1.1 Basic Definitions and Properties . . . . . . . . . . . . . . . . . . . . 1-1 1.2 Linear Time Construction Algorithms . . . . . . . . . . . . . 1-4 Suffix Trees vs. Suffix Arrays • Linear Time Construction of Suffix Trees • Linear Time Construction of Suffix Arrays • Space Issues 1.3 Applications . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 1-11 Pattern Matching • Longest Common Substrings • Text Compression • String Containment • Suffix-Prefix Overlaps 1.4 Lowest Common Ancestors . . . . . . . . . . . . . . . . . . . . . . . . . . 1-17 1.5 Advanced Applications . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 1-18 Suffix Links from Lowest Common Ancestors • Approximate Pattern Matching • Maximal Palindromes
منابع مشابه
Computing suffix links for suffix trees and arrays
We present a new and simple algorithm to reconstruct suffix links in suffix trees and suffix arrays. The algorithm is based on observations regarding suffix tree construction algorithms. With our algorithm we bring suffix arrays even closer to the ease of use and implementation of suffix trees.
متن کاملThe Virtual Suffix Tree: An Efficient Data Structure for Suffix Trees and Suffix Arrays
We introduce the VST (virtual suffix tree), an efficient data structure for suffix trees and suffix arrays. Starting from the suffix array, we construct the suffix tree, from which we derive the virtual suffix tree. The VST provides the same functionality as the suffix tree, including suffix links, but at a much smaller space requirement. It has the same linear time construction even for large ...
متن کاملLinear-Time Construction of Suffix Arrays
The time complexity of suffix tree construction has been shown to be equivalent to that of sorting: O(n) for a constant-size alphabet or an integer alphabet and O(n logn) for a general alphabet. However, previous algorithms for constructing suffix arrays have the time complexity of O(n logn) even for a constant-size alphabet. In this paper we present a linear-time algorithm to construct suffix ...
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Suffix trees are the most frequently used data structures in algorithms on words. In this paper, we consider the depth of a compact suffix tree, also known as the PAT tree, under some simple probabilistic assumptions. For a biased memoryless source, we prove that the limiting distribution for the depth in a PAT tree is the same as the limiting distribution for the depth in a PATRICIA trie, even...
متن کاملOn the Suitability of Suffix Arrays for Lempel-Ziv Data Compression
Lossless compression algorithms of the Lempel-Ziv (LZ) family are widely used nowadays. Regarding time and memory requirements, LZ encoding is much more demanding than decoding. In order to speed up the encoding process, efficient data structures, like suffix trees, have been used. In this paper, we explore the use of suffix arrays to hold the dictionary of the LZ encoder, and propose an algori...
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تاریخ انتشار 2004