Phylogenetic Invariants for $${\mathbb{Z}_3}$$ Z 3 Scheme-Theoretically
نویسندگان
چکیده
منابع مشابه
Phylogenetic Invariants for Genome Rearrangements
We review the combinatorial optimization problems in calculating edit distances between genomes and phylogenetic inference based on minimizing gene order changes. With a view to avoiding the computational cost and the "long branches attract" artifact of some tree-building methods, we explore the probabilization of genome rearrangement models prior to developing a methodology based on branch-len...
متن کاملMetric learning for phylogenetic invariants
We introduce new methods for phylogenetic tree quartet construction by using machine learning to optimize the power of phylogenetic invariants. Phylogenetic invariants are polynomials in the joint probabilities which vanish under a model of evolution on a phylogenetic tree. We give algorithms for selecting a good set of invariants and for learning a metric on this set of invariants which optima...
متن کاملUsing invariants for phylogenetic tree construction
Phylogenetic invariants are certain polynomials in the joint probability distribution of a Markov model on a phylogenetic tree. Such polynomials are of theoretical interest in the field of algebraic statistics and they are also of practical interest — they can be used to construct phylogenetic trees. This paper is a self-contained introduction to the algebraic, statistical, and computational ch...
متن کاملPhylogenetic invariants for stationary base composition
Changing base composition during the evolution of biological sequences can mislead some of the phylogenetic inference techniques in current use. However, detecting whether such a process has occurred may be difficult, since convergent evolution may lead to similar base frequencies emerging from different lineages. To study this situation, algebraic models of biological sequence evolution are in...
متن کاملPhylogenetic Invariants for Metazoan Mitochondrial Genome Evolution.
The method of phylogenetic invariants was developed to apply to aligned sequence data generated, according to a stochastic substitution model, for N species related through an unknown phylogenetic tree. The invariants are functions of the probabilities of the observable N-tuples, which are identically zero, over all choices of branch length, for some trees. Evaluating the invariants associated ...
متن کاملذخیره در منابع من
با ذخیره ی این منبع در منابع من، دسترسی به آن را برای استفاده های بعدی آسان تر کنید
ژورنال
عنوان ژورنال: Annals of Combinatorics
سال: 2016
ISSN: 0218-0006,0219-3094
DOI: 10.1007/s00026-016-0317-x