Pairwise Alignment (pairwise)

Functions

nw_align(seqA, seqB[, scorer, gap]) Carry out the traditional Needleman-Wunsch algorithm.
sw_align(seqA, seqB[, scorer, gap]) Carry out the traditional Smith-Waterman algorithm.
we_align(seqA, seqB[, scorer, gap]) Carry out the traditional Waterman-Eggert algorithm.
edit_dist(seqA, seqB[, normalized, restriction]) Return the edit distance between two strings.
SCA(infile, **keywords) Method returns alignment objects depending on input file or input data.

Classes

Pairwise(seqs[, seqB]) Basic class for the handling of pairwise sequence alignments (PSA).
PSA(infile, **keywords) Basic class for dealing with the pairwise alignment of sequences.