Estimating the Deviation From a Molecular Clock
Luay Nakhleh , Usman Roshan , Lisa Vawter , and Tandy Warnow

Source URL: www.cs.rice.edu

• Computational phylogenetics
• Phylogenetics
• Biology
• Bioinformatics
• Ultrametric space
• Phylogenetic tree
• Neighbor joining
• Maximum parsimony
• Tree
• Distance matrices in phylogeny
• UPGMA

1 Disk Covering Methods: improving the accuracy and speed of large-scale phylogenetic analyses 1.1 Introduction : : : : : : : : : : : : : : : : : : : : : : : : : : : : : : : : : : : : : : : : : : : : 1.2 Phylogenetic ana

Source URL: web.engr.illinois.edu

• Graph theory
• Phylogenetics
• Computational phylogenetics
• Maximum parsimony
• Chordal graph
• Disk-covering method
• Phylogenetic tree
• Neighbor joining
• Tree
• Tree decomposition
• Minimum spanning tree

Performance Study of Phylogenetic Methods: (Unweighted) Quartet Methods and Neighbor-Joining Katherine St. John Dept. of Math & Computer Science, Lehman College and the Graduate Center, City U. of New York E-mail: stjohn

Source URL: www.cs.unm.edu

• Phylogenetics
• Computational phylogenetics
• Unrooted binary tree
• Phylogenetic tree
• Split
• Maximum parsimony
• Neighbor joining
• Substitution model
• Models of DNA evolution
• Tree
• Binary tree

BIOINFORMATICS DISCOVERY NOTE 
 
  

Source URL: www.cs.rice.edu

• Phylogenetics
• Computational phylogenetics
• Maximum parsimony
• Neighbor joining
• Phylogenetic tree
• Horizontal gene transfer
• NJ
• Split
• Quantitative comparative linguistics

FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments Morgan N. Price, Paramvir S. Dehal, Adam P. Arkin Presented by Arjun P. Athreya April 21, 2015 CS 598AGB

Source URL: tandy.cs.illinois.edu

• Phylogenetics
• Tree rearrangement
• Neighbor joining
• B-tree
• Tree
• T-tree
• Maximum likelihood estimation

A Comparison of Phylogenetic Reconstruction Methods on an IE Dataset Luay Nakhleh Tandy Warnow Dept. of Computer Science

Source URL: www.cs.utexas.edu

• Phylogenetics
• Computational phylogenetics
• Maximum parsimony
• Quantitative comparative linguistics
• Cladistics
• Graeco-Armenian
• Phylogenetic tree
• UPGMA
• Perfect phylogeny
• Neighbor joining
• Lexical
• Distance matrices in phylogeny

Theoretical Computer Science–118 www.elsevier.com/locate/tcs A few logs suce to build (almost) all trees: Part II Peter L. Erd˝osa;∗ , Michael A. Steelb , Laszlo A. Szekelyc ,

Source URL: www.cs.utexas.edu

• Computational phylogenetics
• Neighbor joining
• Matrix
• Binary tree
• Tree
• Tree alignment
• Bayesian inference in phylogeny

Syst. Biol. 46(l):101-lllAN ALTERNATING LEAST SQUARES APPROACH TO INFERRING PHYLOGENIES FROM PAIRWISE DISTANCES JOSEPH FELSENSTEIN Department of Genetics, University of Washington, Box, Seattle, Washington

Source URL: sysbio.oxfordjournals.org

• Computational phylogenetics
• Bioinformatics
• Phylogenetics
• Biology
• Statistics
• Mathematical optimization
• Least squares
• Regression analysis
• Neighbor joining
• PHYLIP
• Topology
• Maximum parsimony

Construction of Phylogenetic Trees from Amino Acid Sequences using a Genetic Algorithm Hideo Matsuda

Source URL: www.jsbi.org

• Computational phylogenetics
• Phylogenetics
• Biology
• Bioinformatics
• Multiple sequence alignment
• Neighbor joining
• PHYLIP
• Maximum parsimony
• Sequence alignment
• Phylogenetic tree
• Substitution matrix
• UPGMA

On the Uniqueness of the Selection Criterion in Neighbor-Joining David Bryant February 1, 2005 Abstract The Neighbor-Joining (NJ) method of Saitou and Nei is the most widely used

Source URL: www.maths.otago.ac.nz