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Generalized suffix tree information


Suffix tree for the strings ABAB and BABA. Suffix links not shown.

In computer science, a generalized suffix tree is a suffix tree for a set of strings. Given the set of strings of total length , it is a Patricia tree containing all suffixes of the strings. It is mostly used in bioinformatics.[1]

  1. ^ Cite error: The named reference BRCR was invoked but never defined (see the help page).

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Generalized suffix tree

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In computer science, a generalized suffix tree is a suffix tree for a set of strings. Given the set of strings D = S 1 , S 2 , … , S d {\displaystyle D=S_{1}...

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Suffix tree

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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...

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Longest common substring

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time with a generalized suffix tree. The longest common substrings of a set of strings can be found by building a generalized suffix tree for the strings...

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Generalized suffix array

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A generalized suffix array can be generated for a generalized suffix tree. When compared to a generalized suffix tree, while the generalized suffix array...

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Ternary search tree

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has no left or right children. This would represent a unique suffix in the ternary tree corresponding to the key string. If there is no such path, this...

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GST

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(Singapore) Generation-skipping transfer tax, in the United States Generalized suffix tree GeSbTe, a phase-change material GST Computer Systems, a group of...

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Pattern matching

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| Tree (Black, Tree (Red, a, x, Tree (Red, b, y, c)), z, d) | Tree (Black, a, x, Tree (Red, Tree (Red, b, y, c), z, d)) | Tree (Black, a, x, Tree (Red...

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Suffix array

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output suffix array. Enhanced suffix arrays (ESAs) are suffix arrays with additional tables that reproduce the full functionality of suffix trees preserving...

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Suffix automaton

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that Weiner's 1973 suffix-tree construction algorithm while building a suffix tree of the string S {\displaystyle S} constructs a suffix automaton of the...

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Regular grammar

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a compact notation for regular grammars Regular tree grammar, a generalization from strings to trees Prefix grammar Chomsky hierarchy Perrin, Dominique...

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Longest common subsequence

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algorithm Data structure DAFSA Suffix array Suffix automaton Suffix tree Generalized suffix tree Rope Ternary search tree Trie Other Parsing Pattern matching...

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Nondeterministic finite automaton

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size is generally exponential in the input automaton). NFAs have been generalized in multiple ways, e.g., nondeterministic finite automata with ε-moves...

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Maximal unique match

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thus O(mn). In actuality though MUMs are identified by building a generalized suffix tree for A and B . A list is then created for all internal nodes with...

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Sequential pattern mining

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algorithm Data structure DAFSA Suffix array Suffix automaton Suffix tree Generalized suffix tree Rope Ternary search tree Trie Other Parsing Pattern matching...

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Wavelet Tree

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Originally introduced to represent compressed suffix arrays, it has found application in several contexts. The tree is defined by recursively partitioning the...

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Compressed pattern matching

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algorithm Data structure DAFSA Suffix array Suffix automaton Suffix tree Generalized suffix tree Rope Ternary search tree Trie Other Parsing Pattern matching...

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Cartesian tree

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Guy E. (2014), "A Simple Parallel Cartesian Tree Algorithm and its Application to Parallel Suffix Tree Construction", ACM Transactions on Parallel Computing...

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Ukrainian surnames

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Slavic languages in general) are formed by adding possessive and other suffixes to given names, place names, professions and other words. Surnames were...

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Tree alignment

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Therefore, it is a basic method to solve other alignment problems. Generalized tree alignment Elias, Isaac (2006), "Settling the intractability of multiple...

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Tocharian languages

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VII) with suffix ñ < PIE -n- (palatalized by thematic e, with palatalized variant generalized). Varying subjunctives: i: Athematic without suffix, with root...

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GLR parser

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A GLR parser (generalized left-to-right rightmost derivation parser) is an extension of an LR parser algorithm to handle non-deterministic and ambiguous...

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Genitive case

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English indicates a genitive construction with either the possessive clitic suffix "-'s", or a prepositional genitive construction such as "x of y". However...

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Germanic weak verb

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the factitives in the present, generalizing the alternation to the statives as well, and borrowing *-ai- as the past suffix. Old Norse for the most part...

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