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High Performance Multiple Sequence Alignment Algorithms for Comparison of Microbial Genomes
November 29, 2023 Β· Declared Dead Β· π arXiv.org
"No code URL or promise found in abstract"
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Authors
Manal Helal, Hossam El-Gindy, Bruno Gaeta, Vitali Sinchenko
arXiv ID
2312.02994
Category
q-bio.GN
Cross-listed
cs.DC
Citations
2
Venue
arXiv.org
Last Checked
3 months ago
Abstract
Advances in gene sequencing have enabled in silico analyses of microbial genomes and have led to the revision of concepts of microbial taxonomy and evolution. We explore deficiencies in existing multiple sequence global alignment algorithms and introduce a new indexing scheme to partition the dynamic programming algorithm hypercube scoring tensor over processors based on the dependency between partitions to be scored in parallel. The performance of algorithms is compared in the study of rpoB gene sequences of Mycoplasma species.
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