A large-scale evaluation of algorithms to calculate average nucleotide identity
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Summary
Comparisons show that ANI calculation can be greatly sped up by the OrthoANIu method without losing accuracy, and the run-times of ANIm and Orthoaniu were shorter than that of ANIb by 53- and 22-fold, respectively.
- Type
- article
- Published
- 2017-02-15
- Cited by
- 3,298
- References
- 9
- OpenAlex
- https://openalex.org/W2588775853
- Semantic Scholar
- https://api.semanticscholar.org/CorpusID:648126
Keywords
Algorithm, Genome, Computer science, Identity (music), Scale (ratio)
References
- Basic local alignment search tool.
- Then and now: a systematic review of the systematics of prokaryotes in the last 80 years
- Integrating genomics into the taxonomy and systematics of the Bacteria and Archaea.
- Versatile and open software for comparing large genomes
- Shifting the genomic gold standard for the prokaryotic species definition
- Towards a taxonomic coherence between average nucleotide identity and 16S rRNA gene sequence similarity for species demarcation of prokaryotes.
- DNA-DNA hybridization values and their relationship to whole-genome sequence similarities.
- OrthoANI: An improved algorithm and software for calculating average nucleotide identity.
- Search and clustering orders of magnitude faster than BLAST
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- High throughput ANI analysis of 90K prokaryotic genomes reveals clear species boundaries
- Proposed minimal standards for the use of genome data for the taxonomy of prokaryotes.
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