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RECOMB
2004
Springer
14 years 8 months ago
Reconstructing reticulate evolution in species: theory and practice
We present new methods for reconstructing reticulate evolution of species due to events such as horizontal transfer or hybrid speciation; both methods are based upon extensions of...
Luay Nakhleh, Tandy Warnow, C. Randal Linder
JCB
1998
105views more  JCB 1998»
13 years 7 months ago
Constructing and Counting Phylogenetic Invariants
Abstract. The method of invariants is an approach to the problem of reconstructing the phylogenetic tree of a collection of m taxa using nucleotide sequence data. Models for the re...
Steven N. Evans, Xiaowen Zhou
BMCBI
2010
142views more  BMCBI 2010»
13 years 7 months ago
pplacer: linear time maximum-likelihood and Bayesian phylogenetic placement of sequences onto a fixed reference tree
Background: Likelihood-based phylogenetic inference is generally considered to be the most reliable classification method for unknown sequences. However, traditional likelihood-ba...
Frederick A. Matsen III, Robin B. Kodner, E. Virgi...
BIBE
2003
IEEE
14 years 28 days ago
An Investigation of Phylogenetic Likelihood Methods
Abstract— We analyze the performance of likelihoodbased approaches used to reconstruct phylogenetic trees. Unlike other techniques such as Neighbor-Joining (NJ) and Maximum Parsi...
Tiffani L. Williams, Bernard M. E. Moret
NAR
2011
198views Computer Vision» more  NAR 2011»
12 years 10 months ago
PhylomeDB v3.0: an expanding repository of genome-wide collections of trees, alignments and phylogeny-based orthology and paralo
The growing availability of complete genomic sequences from diverse species has brought about the need to scale up phylogenomic analyses, including the reconstruction of large col...
Jaime Huerta-Cepas, Salvador Capella-Gutiér...