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Computational phylogenetics
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#	Item
31	An experimental study comparing linguistic phylogenetic reconstruction methods Franc¸ois Barbanc¸on,1 Steven N. Evans,2 Luay Nakhleh3 Don Ringe,4 , and Tandy Warnow,5,∗ 1 2 Add to Reading List Source URL: web.engr.illinois.edu Language: English - Date: 2014-08-30 15:58:32 Phylogenetics Computational phylogenetics Biology Maximum parsimony Models of DNA evolution Luay Nakhleh Character evolution Edge Quantitative comparative linguistics
32	Phylogenomic species tree estimation in the presence of incomplete lineage sorting and horizontal gene transfer Add to Reading List Source URL: tandy.cs.illinois.edu Language: English - Date: 2015-07-22 13:03:02 Biology Phylogenetics Computational phylogenetics Genetics Population genetics Bioinformatics Horizontal gene transfer Phylogenetic network Coalescent theory Phylogenetic tree Sequence alignment Species
33	Pairwise Sequence Alignment with Gaps with GPU Thomas C. Carroll Jude-Thaddeus Ojiaku Prudence W.H. Wong Add to Reading List Source URL: cgi.csc.liv.ac.uk Language: English - Date: 2015-10-05 11:33:32 Computational phylogenetics Bioinformatics Biology Applied mathematics BLAST Sequence alignment SmithWaterman algorithm Speedup Parallel computing Dynamic programming General-purpose computing on graphics processing units Multiple sequence alignment
34	CSE 181 Project guidelines Add to Reading List Source URL: www.cs.bilkent.edu.tr Language: English - Date: 2012-11-08 10:11:00 Formal languages Mathematics Bioinformatics Computational phylogenetics Combinatorics Software engineering FASTA Substring String searching algorithm Matching String Pattern matching
35	MrBayesPrimer (with a focus on model selection) Jeremy M. Brown Dept. of Biological Sciences Louisiana State University www.phyleauxgenetics.org Add to Reading List Source URL: treethinkers.org Language: English - Date: 2014-03-09 14:13:45 Statistics Statistical theory Probability Bayesian statistics Bioinformatics Computational phylogenetics Command shells Probability distributions Markov chain Monte Carlo Substitution model IBM i Control Language Command-line interface
36	CSE 584A Class 15 Jeremy Buhler March 21, 2016 1 Add to Reading List Source URL: classes.engineering.wustl.edu Language: English - Date: 2016-03-20 22:29:46 Computational phylogenetics Bioinformatics Biology Dynamic programming Applied mathematics Sequence alignment Gap penalty Levenshtein distance Alignment String searching algorithm Multiple sequence alignment NeedlemanWunsch algorithm
37	IEEE TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS, VOL. 1, NO. 1, Add to Reading List Source URL: www.cs.unm.edu Language: English Graph theory Phylogenetics Mathematics Discrete mathematics Phylogenetic network Phylogenetic tree Directed graph Unrooted binary tree Tree Flow network B-tree Vertex
38	Estimating the Deviation From a Molecular Clock Luay Nakhleh , Usman Roshan , Lisa Vawter , and Tandy Warnow Add to Reading List Source URL: www.cs.rice.edu Language: English - Date: 2004-07-27 17:52:26 Computational phylogenetics Phylogenetics Biology Bioinformatics Ultrametric space Phylogenetic tree Neighbor joining Maximum parsimony Tree Distance matrices in phylogeny UPGMA
39	1 Disk Covering Methods: improving the accuracy and speed of large-scale phylogenetic analyses 1.1 Introduction : : : : : : : : : : : : : : : : : : : : : : : : : : : : : : : : : : : : : : : : : : : : 1.2 Phylogenetic ana Add to Reading List Source URL: web.engr.illinois.edu Language: English - Date: 2014-08-30 15:58:30 Graph theory Phylogenetics Computational phylogenetics Maximum parsimony Chordal graph Disk-covering method Phylogenetic tree Neighbor joining Tree Tree decomposition Minimum spanning tree
40	A STOCHASTIC MODEL OF LANGUAGE EVOLUTION THAT INCORPORATES HOMOPLASY AND BORROWING TANDY WARNOW, STEVEN N. EVANS, DONALD RINGE, AND LUAY NAKHLEH Add to Reading List Source URL: www.cs.rice.edu Language: English - Date: 2005-01-05 11:57:49 Phylogenetics Biology Computational phylogenetics Historical linguistics Evolution Convergent evolution Perfect phylogeny Character evolution Tree model Phylogenetic tree Models of DNA evolution Luay Nakhleh