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Suffix arrays are closely related to suffix trees: . Suffix arrays can be constructed by performing a depth-first traversal of a suffix tree. The suffix array corresponds to the leaf-labels given in the order in which these are visited during the traversal, if edges are visited in the lexicographical order of their first character.
In the array, each suffix is represented by an integer pair (,) which denotes the suffix starting from position in . In the case where different strings in have identical suffixes, in the generalized suffix array, those suffixes will occupy consecutive positions. However, for convenience, the exception can be made where repeats will not be listed.
Given the suffix array and the LCP array of a string =,, … $ of length +, its suffix tree can be constructed in () time based on the following idea: Start with the partial suffix tree for the lexicographically smallest suffix and repeatedly insert the other suffixes in the order given by the suffix array.
You can find the following characteristics in a suffix tree that uses Ukkonen's algorithm: Implicit suffix tree T i+1 is built on top of implicit suffix tree T i. At any given time, Ukkonen's algorithm builds the suffix tree for the characters seen so far and so it has on-line property, allowing the algorithm to have an execution time of O(n).
An alternative to building a generalized suffix tree is to concatenate the strings, and build a regular suffix tree or suffix array for the resulting string. When hits are evaluated after a search, global positions are mapped into documents and local positions with some algorithm and/or data structure, such as a binary search in the starting ...
Compressed suffix arrays are a general class of data structure that improve on the suffix array. [1] [2] These data structures enable quick search for an arbitrary string with a comparatively small index. Given a text T of n characters from an alphabet Σ, a compressed suffix array supports searching for arbitrary patterns in T.
The array L stores the length of the longest common suffix of the prefixes S[1..i] and T[1..j] which end at position i and j, respectively. The variable z is used to hold the length of the longest common substring found so far. The set ret is used to hold the set of strings which are of length z.
The numbers in the leaves give the start position of the corresponding suffix. Suffix links, drawn dashed, are used during construction. In computer science, a suffix tree (also called PAT tree or, in an earlier form, position tree) is a compressed trie containing all the suffixes of the given text as their keys and positions in the text as ...