Class Specialization
SwiftLocal
The specialization for the general swift filter that finds epsilon matches between haystack and needle.
Include Headers
seqan/index.h
Parameters
A haystack type. | |
A q-gram index of needle(s). Types: IndexQGram |
Specialization of
Metafunctions
Type of the container given an iterator. (Finder) | |
Type of an object that stores the difference between two iterators. (Finder) | |
Returns the haystack type of a Finder type. (Finder) | |
Type of the object a given object depends on. (Pattern) | |
Type of iterator objects that are used to traverse the container. (Finder) | |
Returns the needle type of a Pattern type. (Pattern) | |
Returns the scoring scheme of an approximate searching algorithm. (Pattern) | |
Type of the items in the container or behind an iterator. (Finder) |
Functions
The begin of a container. (Finder) | |
Begin position of object in host. (Finder) | |
Resets an object. (Finder) | |
The end of a container. (Finder) | |
End position of object in host. (Finder) | |
Search for a Pattern in a Finder object. (Pattern) | |
Search the begin of an approximate match. (Pattern) | |
Returns the maximal out-of-order distance of adjacent hits. (Swift) | |
Returns the string of hits from the finder. (Swift) | |
Returns the haystack of a Finder object. (Finder) | |
The object a given object depends on. (Pattern) | |
Returns the segment of the last found match in haystack. (Swift) | |
The number of items/characters. (Finder) | |
Returns the needle of a Pattern object (not implemented for some online-algorithms). (Pattern) | |
Position of an iterator. (Pattern) | |
Returns a pair of the begin and end position in the haystack or needle for the last hit found. (Swift) | |
Returns a pair of the begin and end position in or beyond the haystack or needle for the last hit found. (Swift) | |
The scoring scheme used for finding or aligning. (Pattern) | |
Sets the haystack of a Finder object. (Finder) | |
Sets the needle of a Pattern object and optionally induces preprocessing. (Pattern) | |
Sets the position of a finder. (Finder) | |
Sets the scoring scheme used for finding or aligning. (Pattern) | |
Initializes the pattern. Sets the finder on the begin position. Gets the first non-repeat range and sets it in the finder. Used together with windowFindBegin and windowFindEnd. (Swift) | |
Flushes the pattern. Used together with windowFindBegin and windowFindNext. (Swift) | |
Searches over the next window with the finder. The found hits can be retrieved with getWindowFindHits Used together with windowFindBegin and windowFindEnd. (Swift) |
Example Programs
SeqAn - Sequence Analysis Library - www.seqan.de