Function
localAlignment
Computes the best local alignment of two sequences.
localAlignment(strSet, score, tag)
localAlignment(graph, score, tag)
localAlignment(file, strSet, score, tag)
Parameters
strSet
A string set with 2 sequences.
Types: StringSet
Remarks: If an alignment graph is used that graph must contain a string set with two sequences
graph
The alignment graph having 2 sequences.
Types: Alignment Graph
file
A file stream or std::cout to write a textual alignment
score
The score values to be used for computing the alignment.
Types: Score
tag
A tag indicating the alignment algorithm to use
Remarks: SmithWaterman
Return Values
The maximum score of the best local alignment.
Example Programs
Local Alignments
SeqAn - Sequence Analysis Library - www.seqan.de