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Systematics : a course of lectures

Author: Ward Wheeler
Publisher: Chichester, West Sussex ; Hoboken, NJ : Wiley-Blackwell, 2012.
Edition/Format:   Print book : EnglishView all editions and formats
Summary:
" ... Designed for use in an advanced undergraduate or introductory graduate level course in systematics and is meant to present core systematic concepts and literature. The book covers topics such as the history of systematic thinking and fundamental concepts in the field including species concepts, homology, and hypothesis testing. Analytical methods are covered in detail with chapters devoted to sequence  Read more...
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Genre/Form: Classification
Textbooks
Document Type: Book
All Authors / Contributors: Ward Wheeler
ISBN: 9780470671702 047067170X 9780470671696 0470671696
OCLC Number: 779606891
Description: xviii, 426 pages : illustrations (some color), map ; 25 cm
Contents: Fundamentals. History (Aristotle ; Theophrastus ; Pierre Belon ; Carolus Linnaeus ; George Louis Leclerc, Comte de Buffon ; Jean-Baptiste Lamarck ; Georges Cuvier ; Etienne Geoffroy Saint-Hilaire ; Johann Wolfgang von Goethe ; Lorenz Oken ; Richard Owen ; Charles Darwin ; Stammbaume ; Evolutionary taxonomy ; Phenetics ; Phylogenetic systematics ; Molecules and morphology ; We are all Cladists) ; Fundamental concepts (Characters ; Taxa ; Graphs, trees, and networks ; Polarity and rooting ; Optimality ; Homology) ; Species concepts, definitions, and issues (Typological or taxonomic species concept ; Biological species concept ; Phylogenetic species concept(s) ; Lineage species concepts ; Species as individuals or classes ; Monoism and pluralism ; Pattern and process ; Species nominalism ; Do species concepts matter?) ; Hypothesis testing and the philosophy of science (Forms of scientific reasoning ; Other philosophical issues ; Quotidian importance) ; Computational concepts (Problems, algorithms, and complexity ; An example: The traveling salesman problem ; Heuristic solutions ; Metricity, and untrametricity ; NP complete problems in systematics) ; Statistical and mathematical basics (Theory of statistics ; Matrix algebra, differential equations, and Markov models) --
Homology. Homology (Pre-evolutionary concepts ; Charles Darwin, E. Ray Lankester ; Adolf Remane ; Four types and homology ; Dynamic and static homology); Sequence alignment (Background ; "Informal" alignment ; Sequences ; Pairwise string matching ; Multiple sequence alignment) --
Optimality criteria. Optimality criteria --
distance (Why distance? ; Distance functions ; Ultrametric trees ; Additive trees ; General distances ; Comparisons) ; Optimality criteria --
parsimony (Perfect phylogeny ; Static homology characters ; Missing data ; Edge transformation assignments ; Collapsing branches ; Dynamic homology ; Dynamic and static homology ; Sequences as characters ; The tree alignment problem on trees ; Performance of heuristic solutions ; Parameter sensitivity ; Implied alignment ; Rearrangement ; Horizontal gene transfer, hybridization, and phylogenetic networks) ; Optimality criteria --
likelihood (Motivation ; Maximum likelihood and trees ; Types of likelihood ; Static-homology characters ; Dynamic-homology characters ; Hypothesis testing) ; Optimality criteria --
posterior probability (Bayes in systematics ; Priors ; Techniques ; Topologies and Clades ; Optimality versus support ; Dynamic homology ; Rearrangement ; Criticisms of Bayesian methods) ; Comparison of optimality criteria (Distance and character methods ; Epistemology ; Statistical behavior ; Performance ; Convergence ; Can we argue optimality criteria?) --
Trees. Tree searching (Exact solutions ; Heuristic solutions ; Trajectory search ; Randomization ; Perturbation ; Sectorial searches and disc-covering methods ; Simulated annealing ; Genetic algorithm ; Synthesis and stopping ; Empirical examples) ; Support (Resampling measures ; Optimality-based measures ; Parameter-based measures ; Comparison of support measures --
optimal and average ; Which to choose?); Consensus, congruence, and supertrees (Consensus tree methods ; Supertrees) --
Applications. Clocks and rates (The molecular clock ; Dating ; Testing clocks ; Relaxed clock models ; Implementations ; Criticisms ; Molecular dates?) --
Mathematical notation.
Responsibility: Ward C. Wheeler.
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Abstract:

Systematics: A Course of Lectures is designed for use in an advanced undergraduate or introductory graduate level course in systematics and is meant to present core systematic concepts and literature.

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Viewed as a series of lectures, this is clearly aimed at graduate level courses in systematics, although some elements would prove useful at undergraduate level. (British Ecological Society Bulletin, Read more...

 
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