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Proceedings of the National Academy of Sciences of the United States of America logoLink to Proceedings of the National Academy of Sciences of the United States of America
. 1992 Jul 1;89(13):6090–6093. doi: 10.1073/pnas.89.13.6090

Parametric sequence comparisons.

M S Waterman 1, M Eggert 1, E Lander 1
PMCID: PMC49443  PMID: 1631095

Abstract

Current algorithms can find optimal alignments of two nucleic acid or protein sequences, often by using dynamic programming. While the choice of algorithm penalty parameters greatly influences the quality of the resulting alignments, this choice has been done in an ad hoc manner. In this work, we present an algorithm to efficiently find the optimal alignments for all choices of the penalty parameters. It is then possible to systematically explore these alignments for those with the most biological or statistical interest. Several examples illustrate the method.

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Selected References

These references are in PubMed. This may not be the complete list of references from this article.

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