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In computer science, a substring index is a data structure which gives substring search in a text or text collection in sublinear time. Once constructed from a document or set of documents, a substring index can be used to locate all occurrences of a pattern in time linear or near-linear in the pattern size, with no dependence or only logarithmic dependence on the document size.
For function that manipulate strings, modern object-oriented languages, like C# and Java have immutable strings and return a copy (in newly allocated dynamic memory), while others, like C manipulate the original string unless the programmer copies data to a new string.
A string is generally considered as a data type and is often implemented as an array data structure of bytes (or words) that stores a sequence of elements, typically characters, using some character encoding. String may also denote more general arrays or other sequence (or list) data types and structures.
P denotes the string to be searched for, called the pattern. Its length is m. S[i] denotes the character at index i of string S, counting from 1. S[i..j] denotes the substring of string S starting at index i and ending at j, inclusive. A prefix of S is a substring S[1..i] for some i in range [1, l], where l is the length of S.
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 set ret can be saved efficiently by just storing the index i, which is the last character of the longest common substring (of size z) instead of S[i-z+1..i].
A simple and inefficient way to see where one string occurs inside another is to check at each index, one by one. First, we see if there is a copy of the needle starting at the first character of the haystack; if not, we look to see if there's a copy of the needle starting at the second character of the haystack, and so forth.
The total length of all the strings on all of the edges in the tree is (), but each edge can be stored as the position and length of a substring of S, giving a total space usage of () computer words. The worst-case space usage of a suffix tree is seen with a fibonacci word , giving the full 2 n {\displaystyle 2n} nodes.
In computer science, an FM-index is a compressed full-text substring index based on the Burrows–Wheeler transform, with some similarities to the suffix array.It was created by Paolo Ferragina and Giovanni Manzini, [1] who describe it as an opportunistic data structure as it allows compression of the input text while still permitting fast substring queries.