dorsal/arxiv
View SchemaThe identifiability of tree topology for phylogenetic models, including covarion and mixture models
| Authors | Elizabeth S. Allman, John A. Rhodes |
|---|---|
| Categories | |
| ArXiv ID | q-bio/0511009 |
| URL | https://arxiv.org/abs/q-bio/0511009 |
Abstract
For a model of molecular evolution to be useful for phylogenetic inference, the topology of evolutionary trees must be identifiable. That is, from a joint distribution the model predicts, it must be possible to recover the tree parameter. We establish tree identifiability for a number of phylogenetic models, including a covarion model and a variety of mixture models with a limited number of classes. The proof is based on the introduction of a more general model, allowing more states at internal nodes of the tree than at leaves, and the study of the algebraic variety formed by the joint distributions to which it gives rise. Tree identifiability is first established for this general model through the use of certain phylogenetic invariants.
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"abstract": "For a model of molecular evolution to be useful for phylogenetic inference,\nthe topology of evolutionary trees must be identifiable. That is, from a joint\ndistribution the model predicts, it must be possible to recover the tree\nparameter. We establish tree identifiability for a number of phylogenetic\nmodels, including a covarion model and a variety of mixture models with a\nlimited number of classes. The proof is based on the introduction of a more\ngeneral model, allowing more states at internal nodes of the tree than at\nleaves, and the study of the algebraic variety formed by the joint\ndistributions to which it gives rise. Tree identifiability is first established\nfor this general model through the use of certain phylogenetic invariants.",
"arxiv_id": "q-bio/0511009",
"authors": [
"Elizabeth S. Allman",
"John A. Rhodes"
],
"categories": [
"q-bio.PE",
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],
"title": "The identifiability of tree topology for phylogenetic models, including covarion and mixture models",
"url": "https://arxiv.org/abs/q-bio/0511009"
},
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