Lossless Approximate Pattern Matching: Automated Design of Efficient Search Schemes.
approximate pattern matching
integer linear program
search schemes
sequence alignment
Journal
Journal of computational biology : a journal of computational molecular cell biology
ISSN: 1557-8666
Titre abrégé: J Comput Biol
Pays: United States
ID NLM: 9433358
Informations de publication
Date de publication:
30 Sep 2024
30 Sep 2024
Historique:
medline:
30
9
2024
pubmed:
30
9
2024
entrez:
30
9
2024
Statut:
aheadofprint
Résumé
This study introduces a pioneering approach to automate the creation of search schemes for lossless approximate pattern matching. Search schemes are combinatorial structures that define a series of searches over a partitioned pattern. Each search specifies the processing order of these parts and the cumulative lower and upper bounds on the number of errors in each part of the pattern. Together, these searches ensure the identification of all approximate occurrences of a search pattern within a predefined limit of
Identifiants
pubmed: 39344875
doi: 10.1089/cmb.2024.0664
doi:
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM