Class Specialization
Block String
String optimized for push_back, top, and pop (Stack behaviour).
Parameters
The value type, that is the type of the items/characters stored in the string. Remarks: Use Value to get the value type for a given class. | |
A positive integer that specifies the number of values in each allocated block. Remarks: Size should be a power of 2, e.g., 1024. |
Specialization of
Implements
Metafunctions
The default overflow strategy for explicit resize. (String) | |
The default overflow strategy for implicit resize. (String) | |
Infix sequence type. (String) | |
Determines whether a container stores its elements in sequential order. (String) | |
Type of iterator objects that are used to traverse the container. | |
Type of an object that represents a position in a container. (String) | |
Prefix sequence type. (String) | |
The default alphabet type of a suffix array, i.e. the type to store a position of a string or string set. (String) | |
The spec of a class. (String) | |
Suffix sequence type. (String) |
Functions
Concatenate two containers. (String) | |
Appends a value to a container. | |
Assigns one object to another object. (String) | |
Assigns value to item. (Container) | |
Tests whether iterator is at nil position. (String) | |
The last item in container. (Container) | |
The begin of a container. (String) | |
Begin position of object in host. (String) | |
The maximal length. (String) | |
Resets an object. (String) | |
Creates a factor oracle. (String) | |
Creates a factor oracle for the reversed string. (String) | |
Creates a trie. (String) | |
Creates a trie for all reversed keywords. (String) | |
Determines the consensus pattern of a given profile. (String) | |
Test a container for being empty. (String) | |
The end of a container. (String) | |
End position of object in host. (String) | |
Erases a part of a container (String) | |
Extends a seed. (String) | |
Extenstion of seeds. (String) | |
Resizes and fills a container. (String) | |
The first item in container. (Container) | |
Constructs a alignment from a MultiSeed. (String) | |
Computes a pairwise distance matrix from an alignment graph. (String) | |
Gets the successor for a given vertex and an edge label. For an automaton a single character is required whereas for a word graph getSuccessor takes a string. (String) | |
Access to the value. (Container) | |
Iterates down one edge or a path in a tree. (String) | |
Moves iterator to nil position. (String) | |
Computes the heaviest increasing subsequence. (String) | |
A value that identifies the underlying sequence. (String) | |
Creates infix object. (String) | |
Creates infix object. (String) | |
Iterator to item at given position. (String) | |
The number of items/characters. (String) | |
Computes the longest common subsequence. (String) | |
Computes the longest increasing subsequence. (String) | |
Assigns value to item. (Container) | |
Parses a string one character at a time and moves accordingly in the automaton. (String) | |
Position of an iterator. (Container) | |
Creates prefix object. (String) | |
Replaces a part of a container with another container. (String) | |
Increases the capacity. | |
Changes the length. (String) | |
Makes free space in container (String) | |
Calculates the score of a seed. (String) | |
Sets the haystack of a Finder object. (String) | |
Sets the needle of a Pattern object and optionally induces preprocessing. (String) | |
Determines whether two sequences share the same resource. (String) | |
Computes a guide tree from a distance matrix. (String) | |
Retrieves a string of delimiter positions of a StringSet which is needed for local<->global position conversions. (String) | |
Takes a shape given as a string of '1' (relevant position) and '0' (irrelevant position) and converts it into a Shape object. (String) | |
Creates suffix object. (String) | |
Access sequence as c-style string. (String) | |
Performs a topological sort on a directed acyclic graph (DAG). (String) | |
Computes a guide tree from a distance matrix. (String) | |
Reference to the value. (String) |
Example Programs
SeqAn - Sequence Analysis Library - www.seqan.de