SAQ: Semi-Algebraic Quartet Reconstruction.
IEEE/ACM Trans Comput Biol Bioinform
; 18(6): 2855-2861, 2021.
Article
em En
| MEDLINE
| ID: mdl-34339375
ABSTRACT
We present the phylogenetic quartet reconstruction method SAQ (Semi-Algebraic Quartet reconstruction). SAQ is consistent with the most general Markov model of nucleotide substitution and, in particular, it allows for rate heterogeneity across lineages. Based on the algebraic and semi-algebraic description of distributions that arise from the general Markov model on a quartet, the method outputs normalized weights for the three trivalent quartets (which can be used as input of quartet-based methods). We show that SAQ is a highly competitive method that outperforms most of the well known reconstruction methods on data simulated under the general Markov model on 4-taxon trees. Moreover, it also achieves a high performance on data that violates the underlying assumptions.
Texto completo:
1
Coleções:
01-internacional
Base de dados:
MEDLINE
Assunto principal:
Filogenia
/
Cadeias de Markov
/
Biologia Computacional
/
Modelos Genéticos
Tipo de estudo:
Health_economic_evaluation
Idioma:
En
Revista:
ACM Trans Comput Biol Bioinform
Assunto da revista:
BIOLOGIA
/
INFORMATICA MEDICA
Ano de publicação:
2021
Tipo de documento:
Article