An alignment of sequences.
Type of the ungapped sequences.
The specializing type.
The default implementation of
Align stores the alignment in a set of Gaps<TSource,TSpec> objects.
Hence, the default implementation is row-based, so it will be faster to access the alignment row-wise than column-wise.
|Type of a column in an alignment.|
|Type of column container of an alignment.|
|Type for reading values.|
|Type of a row in an alignment.|
|Type of row container of an alignment.|
|Return underlying sequence of Gaps/Alignments.|
|Return type of stringSet function.|
|Type of the items in the container or behind an iterator.|
|Convert BamAlignmentRecord to an Align object.|
|Computes the best global pairwise alignment between two sequences given a non-empty seed chain.|
|A column in an alignment.|
|The container of columns in an alignment.|
|Makes an object independent from other objects.|
|Computes the best global pairwise alignment.|
|Integrates an alignment into another by copying the gaps.|
|Computes the best pairwise local alignment using the Smith-Waterman algorithm.|
|Refines (i.e. cuts into smaller parts) a set of pairwise segment matches in such a way that none of the segments partly overlap. They are either identical (fully overlapping) or non-overlapping.|
|Compute next suboptimal local alignment.|
|A row in an alignment.|
|The container of rows in an alignment.|
|Loads the sequences of a stringset into an alignment.|
|Compute split alignments.|
|Gets the string set of an alignment graph.|
SeqAn - Sequence Analysis Library - www.seqan.de