Class Specialization
Score ChainSoP
Scoring scheme for chaining that uses a special method for scoring the gaps between two fragments.
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Score ChainSoP | |||||||
Parameters
Type of the score values. |
Specialization of
Functions
| Given a multiple alignment, this function calculates all kinds of alignment statistics. (Score) | |
| Computes the best global alignment of the two sequences. (Score) | |
| Computes the best local alignment of two sequences. (Score) | |
| 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. 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. (Score) | |
| Computes multiple local alignments of two sequences. (Score) | |
| The score for aligning two values according to a scoring scheme. (Score) | |
| Computes the best local alignment of the (two) sequences given in align. (Score) | |
| Computes next best local alignment. (Score) | |
| Given a multiple alignment, this function calculates the sum-of-pairs score. (Score) |
Remarks
This scoring scheme is used to score gaps between to fragments in chaining.
Example Programs
SeqAn - Sequence Analysis Library - www.seqan.de