Class Specialization
SimpleShape
A variable length ungapped shape (also called q-gram or k-mer).
SimpleShape |
Parameters
The Value type of the string the shape is applied to (e.g. |
Specialization of
Metafunctions
Number of elements in a fixed-size container. (Shape) | |
Type of an object that is suitable to hold size information. (Shape) | |
Type of the items in the container. (Shape) | |
Number of different values a value type object can have. (Shape) | |
Number of relevant positions in a shape. (Shape) |
Member Functions
Constructor |
Functions
Builds an index on a StringSet storing how often a q-gram occurs in each sequence. (Shape) | |
Builds a q-gram index on a sequence. (Shape) | |
Builds the directory of a q-gram index on a sequence. (Shape) | |
Builds the suffix array of a q-gram index on a sequence. (Shape) | |
Computes a (lower) hash value for a shape applied to a sequence. (Shape) | |
Computes a unique hash value of a shape, even if it is shorter than its span. (Shape) | |
Computes a unique hash value for the adjacent shape, even if it is shorter than q. (Shape) | |
Computes the hash value for the adjacent shape. (Shape) | |
Computes an upper hash value for a shape applied to a sequence. (Shape) | |
Shortcut for | |
The number of items/characters. (Shape) | |
Changes the length. | |
Reference to the value. (Shape) | |
Number of relevant positions in a shape. (Shape) |
Remarks
A SimpleShape must be resized first to a valid length. To do so, call resize.
See Also
SeqAn - Sequence Analysis Library - www.seqan.de