Phylogenetic trees and Euclidean embeddings Article Swipe
Mark Layer
,
John A. Rhodes
·
YOU?
·
· 2016
· Open Access
·
· DOI: https://doi.org/10.48550/arxiv.1605.01039
YOU?
·
· 2016
· Open Access
·
· DOI: https://doi.org/10.48550/arxiv.1605.01039
It was recently observed by de Vienne et al. that a simple square root transformation of distances between taxa on a phylogenetic tree allowed for an embedding of the taxa into Euclidean space. While the justification for this was based on a diffusion model of continuous character evolution along the tree, here we give a direct and elementary explanation for it that provides substantial additional insight. We use this embedding to reinterpret the differences between the NJ and BIONJ tree building algorithms, providing one illustration of how this embedding reflects tree structures in data.
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Metadata
- Type
- preprint
- Language
- en
- Landing Page
- http://arxiv.org/abs/1605.01039
- https://arxiv.org/pdf/1605.01039
- OA Status
- green
- Cited By
- 1
- References
- 13
- Related Works
- 20
- OpenAlex ID
- https://openalex.org/W2949720866
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https://openalex.org/W2949720866Canonical identifier for this work in OpenAlex
- DOI
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https://doi.org/10.48550/arxiv.1605.01039Digital Object Identifier
- Title
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Phylogenetic trees and Euclidean embeddingsWork title
- Type
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preprintOpenAlex work type
- Language
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enPrimary language
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2016Year of publication
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2016-05-03Full publication date if available
- Authors
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Mark Layer, John A. RhodesList of authors in order
- Landing page
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https://arxiv.org/abs/1605.01039Publisher landing page
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https://arxiv.org/pdf/1605.01039Direct link to full text PDF
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YesWhether a free full text is available
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greenOpen access status per OpenAlex
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- Concepts
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Phylogenetic tree, Embedding, Tree (set theory), Character (mathematics), Tree rearrangement, Simple (philosophy), Mathematics, Euclidean geometry, Taxon, Transformation (genetics), Combinatorics, Computer science, Artificial intelligence, Paleontology, Biology, Geometry, Epistemology, Philosophy, Biochemistry, GeneTop concepts (fields/topics) attached by OpenAlex
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1Total citation count in OpenAlex
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2016: 1Per-year citation counts (last 5 years)
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20Other works algorithmically related by OpenAlex
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| primary_location.landing_page_url | http://arxiv.org/abs/1605.01039 |
| publication_date | 2016-05-03 |
| publication_year | 2016 |
| referenced_works | https://openalex.org/W2120323779, https://openalex.org/W2108039804, https://openalex.org/W2134892520, https://openalex.org/W2077458391, https://openalex.org/W2160936843, https://openalex.org/W2097706568, https://openalex.org/W1814244002, https://openalex.org/W2103490626, https://openalex.org/W2103412835, https://openalex.org/W1996835973, https://openalex.org/W2002579489, https://openalex.org/W2056786901, https://openalex.org/W2013410948 |
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