The Contest Between Parsimony and Likelihood
نویسندگان
چکیده
منابع مشابه
The contest between parsimony and likelihood.
In a “classic” phylogenetic inference problem, the observed taxa are assumed to be the leaves of a bifurcating tree and the goal is to infer just the “topology” of the tree (i.e., the formal tree structure linking the extant taxa at the tips), not amount of time between branching events, or amount of evolution that has taken place on branches, or character states of interior vertices. Two of th...
متن کاملParsimony, likelihood, and simplicity
The latest charge against parsimony in phylogenetic inference is that it involves estimating too many parameters. The charge is derived from the fact that, when each character is allowed a branch length vector of its own (instead of the homogeneous branch lengths assumed in current likelihood models), the results for likelihood and parsimony are identical. Parsimony, however, can also be derive...
متن کاملParsimony accelerated Maximum Likelihood searches
Phylogenetic search is a key tool used in a variety of biological research endeavours. However, this search problem is known to be computationally difficult, due to the astronomically large search space, making the use of heuristic methods necessary. The performance of heuristic methods for finding Maximum Likelihood (ML) trees can be improved by using parsimony as an initial estimator for ML. ...
متن کاملPenalized likelihood phylogenetic inference: bridging the parsimony-likelihood gap.
The increasing diversity and heterogeneity of molecular data for phylogeny estimation has led to development of complex models and model-based estimators. Here, we propose a penalized likelihood (PL) framework in which the levels of complexity in the underlying model can be smoothly controlled. We demonstrate the PL framework for a four-taxon tree case and investigate its properties. The PL fra...
متن کاملBias in phylogenetic estimation and its relevance to the choice between parsimony and likelihood methods.
DAVID L. SWOFFORD,1,6 PETER J. WADDELL,2 JOHN P. HUELSENBECK,3 PETER G. FOSTER,1,7 PAUL O. LEWIS,4 AND JAMES S. ROGERS5 Laboratory of Molecular Systematics, National Museum of Natural History, Smithsonian Institution Museum Support Center, 4210 Silver Hill Road, Suitland, Maryland 20746, USA; E-mail: [email protected] Institute of Molecular BioSciences, Massey University, Palmerston North, Ne...
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: Systematic Biology
سال: 2004
ISSN: 1076-836X,1063-5157
DOI: 10.1080/10635150490468657