A grammar-based unification of several alignment and folding algorithms.

F Lefebvre

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PubMed · 8877514

A grammar-based unification of several alignment and folding algorithms.

F Lefebvre

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Abstract

We show in this paper that many popular models of folding and/or alignment may be described by a new formalism: multi-tape S-attribute grammars (MT-SAG's). This formalism relieves the designer of biological models of implementation details which may hinder his inventiveness. To complete this formalism, we designed and implemented a tool which, given a MTSAG, will output an efficient parser for this grammar. We also show that MTSAG's offer a new, efficient and useful way to handle stochastic context-free grammars and tools that generate them.

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Algorithms Base Sequence Models, Biological Models, Genetic Molecular Sequence Data Sequence Alignment Journal Article

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F Lefebvre. 1996. A grammar-based unification of several alignment and folding algorithms.. https://pubmed.ncbi.nlm.nih.gov/8877514/

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