Computes the best global pairwise alignment score.
Horizontal gapped sequence in alignment matrix.
Vertical gapped sequence in alignment matrix.
A StringSet containing two sequences.
The scoring scheme to use for the alignment. Note that the user is responsible for ensuring that the scoring scheme is compatible with
The AlignConfig to use for the alignment.
Optional lower diagonal.
Optional upper diagonal.
The Tag for picking the alignment algorithm.
This function does not perform the (linear time) traceback step after the (mostly quadratic time) dynamic programming step. Note that Myers' bit-vector algorithm does not compute an alignment (only in the Myers-Hirschberg variant) but scores can be computed using
The same limitations to algorithms as in globalAlignment apply. Furthermore, the
MyersBitVector and MyersHirschberg variants can only be used without any other parameter.
SeqAn - Sequence Analysis Library - www.seqan.de