Holds the needle and preprocessing data (depends on algorithm).
The online-algorithm to search with.
Types: AbndmAlgo, AhoCorasick, Bfam, BndmAlgo, HammingSimpleFinder, Horspool, MultiBfam, MultipleShiftAnd, Myers, Pex, Score, SetHorspool, ShiftAnd, ShiftOr, Simple Finder, Swift, WildShiftAnd, WuManber
Default: The result of DefaultPattern
Remarks: Leave empty for index-based pattern matching (see Index).
The needle type.
TNeedle is a set of strings, then position(pattern) returns the index of the currently matching needle.
|Approximate Backward Nondeterministic Dawg Matching algorithm. Approximate string matching using bit parallelism.|
|Multiple exact string matching using Aho-Corasick.|
|Backward Factor Automaton Matching algorithm.|
|Backward Nondeterministic Dawg Matching algorithm. Exact string matching using bit parallelism.|
|A dynamic programming algorithm for approximate string-matching with a user-definable scoring function.|
|A brute force online searching algorithm for approximate string matching with hamming distance.|
|Exact string matching using Horspool's algorithm (1980).|
|Multi-Pattern Backward Factor Automaton Matching.|
|Multiple exact string matching using bit parallelism. The total size of the patterns should fit into a computer word.|
|Provides fast approximate searching of one string in another using Myer's fast bit-parallel algorithm with application of the Ukkonen-trick.|
|Provides a fast approximate string matching filter that splits the needle into several pieces that are searched with a multiple exact string matching algorithm and later verified.|
|Multiple exact string matching using set horspool algorithm.|
|Exact string matching using bit parallelism. The Shift-And algorithm is applicable to search small patterns in texts using a small alphabet.|
|Exact string matching using bit parallelism. The Shift-Or algorithm is applicable to search small patterns in texts using a small alphabet.|
|A brute force online searching algorithm.|
|Provides a fast filter alogrithm that guarantees to find all regions overlapping with potential ε-matches. An ε-match is a matching region of minimal length and an error rate of at most ε.|
|Exact string matching with wildcards using bit parallelism. The Shift-And algorithm is applicable to search small patterns in texts using a small alphabet.|
|Online-algorithm for multi-pattern search.|
|Type of the object a given object depends on.|
|Returns the needle type of a Pattern type.|
|Returns the scoring scheme of an approximate searching algorithm.|
|Search for a Pattern in a Finder object.|
|Search the begin of an approximate match.|
|The object a given object depends on.|
|Returns the needle of a Pattern object (not implemented for some online-algorithms).|
|Position of an iterator.|
|The scoring scheme used for finding or aligning.|
|Sets the needle of a Pattern object and optionally induces preprocessing.|
|Sets the scoring scheme used for finding or aligning.|
SeqAn - Sequence Analysis Library - www.seqan.de