Estimating Species Trees

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Estimating Species Trees

Author : L. Lacey Knowles
Publisher : John Wiley and Sons
ISBN 13 : 1118126025
Total Pages : 230 pages
Book Rating : 4.1/5 (181 download)

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Book Synopsis Estimating Species Trees by : L. Lacey Knowles

Download or read book Estimating Species Trees written by L. Lacey Knowles and published by John Wiley and Sons. This book was released on 2011-05-09 with total page 230 pages. Available in PDF, EPUB and Kindle. Book excerpt: Recent computational and modeling advances have produced methods for estimating species trees directly, avoiding the problems and limitations of the traditional phylogenetic paradigm where an estimated gene tree is equated with the history of species divergence. The overarching goal of the volume is to increase the visibility and use of these new methods by the entire phylogenetic community by specifically addressing several challenges: (i) firm understanding of the theoretical underpinnings of the methodology, (ii) empirical examples demonstrating the utility of the methodology as well as its limitations, and (iii) attention to technical aspects involved in the actual software implementation of the methodology. As such, this volume will not only be poised to become the quintessential guide to training the next generation of researchers, but it will also be instrumental in ushering in a new phylogenetic paradigm for the 21st century.

Estimating Species Trees

Author : L. Lacey Knowles
Publisher : John Wiley & Sons
ISBN 13 : 1118211405
Total Pages : 332 pages
Book Rating : 4.1/5 (182 download)

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Book Synopsis Estimating Species Trees by : L. Lacey Knowles

Download or read book Estimating Species Trees written by L. Lacey Knowles and published by John Wiley & Sons. This book was released on 2011-09-20 with total page 332 pages. Available in PDF, EPUB and Kindle. Book excerpt: Recent computational and modeling advances have produced methods for estimating species trees directly, avoiding the problems and limitations of the traditional phylogenetic paradigm where an estimated gene tree is equated with the history of species divergence. The overarching goal of the volume is to increase the visibility and use of these new methods by the entire phylogenetic community by specifically addressing several challenges: (i) firm understanding of the theoretical underpinnings of the methodology, (ii) empirical examples demonstrating the utility of the methodology as well as its limitations, and (iii) attention to technical aspects involved in the actual software implementation of the methodology. As such, this volume will not only be poised to become the quintessential guide to training the next generation of researchers, but it will also be instrumental in ushering in a new phylogenetic paradigm for the 21st century.

Biomass Equations for Major Tree Species of the Northeast

Author : Louise M. Tritton
Publisher :
ISBN 13 :
Total Pages : 52 pages
Book Rating : 4.:/5 (319 download)

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Book Synopsis Biomass Equations for Major Tree Species of the Northeast by : Louise M. Tritton

Download or read book Biomass Equations for Major Tree Species of the Northeast written by Louise M. Tritton and published by . This book was released on 1982 with total page 52 pages. Available in PDF, EPUB and Kindle. Book excerpt:

Handbook of Statistical Genomics

Author : David J. Balding
Publisher : John Wiley & Sons
ISBN 13 : 1119429250
Total Pages : 1740 pages
Book Rating : 4.1/5 (194 download)

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Book Synopsis Handbook of Statistical Genomics by : David J. Balding

Download or read book Handbook of Statistical Genomics written by David J. Balding and published by John Wiley & Sons. This book was released on 2019-07-09 with total page 1740 pages. Available in PDF, EPUB and Kindle. Book excerpt: A timely update of a highly popular handbook on statistical genomics This new, two-volume edition of a classic text provides a thorough introduction to statistical genomics, a vital resource for advanced graduate students, early-career researchers and new entrants to the field. It introduces new and updated information on developments that have occurred since the 3rd edition. Widely regarded as the reference work in the field, it features new chapters focusing on statistical aspects of data generated by new sequencing technologies, including sequence-based functional assays. It expands on previous coverage of the many processes between genotype and phenotype, including gene expression and epigenetics, as well as metabolomics. It also examines population genetics and evolutionary models and inference, with new chapters on the multi-species coalescent, admixture and ancient DNA, as well as genetic association studies including causal analyses and variant interpretation. The Handbook of Statistical Genomics focuses on explaining the main ideas, analysis methods and algorithms, citing key recent and historic literature for further details and references. It also includes a glossary of terms, acronyms and abbreviations, and features extensive cross-referencing between chapters, tying the different areas together. With heavy use of up-to-date examples and references to web-based resources, this continues to be a must-have reference in a vital area of research. Provides much-needed, timely coverage of new developments in this expanding area of study Numerous, brand new chapters, for example covering bacterial genomics, microbiome and metagenomics Detailed coverage of application areas, with chapters on plant breeding, conservation and forensic genetics Extensive coverage of human genetic epidemiology, including ethical aspects Edited by one of the leading experts in the field along with rising stars as his co-editors Chapter authors are world-renowned experts in the field, and newly emerging leaders. The Handbook of Statistical Genomics is an excellent introductory text for advanced graduate students and early-career researchers involved in statistical genetics.

Specific Gravity and Other Properties of Wood and Bark for 156 Tree Species Found in North America

Author : Patrick D. Miles
Publisher :
ISBN 13 :
Total Pages : 40 pages
Book Rating : 4.3/5 (91 download)

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Book Synopsis Specific Gravity and Other Properties of Wood and Bark for 156 Tree Species Found in North America by : Patrick D. Miles

Download or read book Specific Gravity and Other Properties of Wood and Bark for 156 Tree Species Found in North America written by Patrick D. Miles and published by . This book was released on 2009 with total page 40 pages. Available in PDF, EPUB and Kindle. Book excerpt: Much information is available for specific gravity and other properties of wood and bark, but it is widely scattered in the literature. This paper compiles information for estimation of biomass for 156 tree species found in North America for use in national forest inventory applications. We present specific gravities based on average green volume as well as 12 percent moisture content volume for calculation of oven-dry biomass. Additional information is included on bark thickness, bark voids, and bark percentages by species and green and dry weight of wood and bark. --

Measuring Abundance

Author : Graham Upton
Publisher : Pelagic Publishing Ltd
ISBN 13 : 1784272337
Total Pages : 278 pages
Book Rating : 4.7/5 (842 download)

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Book Synopsis Measuring Abundance by : Graham Upton

Download or read book Measuring Abundance written by Graham Upton and published by Pelagic Publishing Ltd. This book was released on 2020-10-12 with total page 278 pages. Available in PDF, EPUB and Kindle. Book excerpt: Measuring the abundance of individuals and the diversity of species are core components of most ecological research projects and conservation monitoring. This book brings together in one place, for the first time, the methods used to estimate the abundance of individuals in nature. The statistical basis of each method is detailed along with practical considerations for survey design and data collection. Methods are illustrated using data ranging from Alaskan shrubs to Yellowstone grizzly bears, not forgetting Costa Rican ants and Prince Edward Island lobsters. Where necessary, example code for use with the open source software R is supplied. When appropriate, reference is made to other widely used programs. After opening with a brief synopsis of relevant statistical methods, the first section deals with the abundance of stationary items such as trees, shrubs, coral, etc. Following a discussion of the use of quadrats and transects in the contexts of forestry sampling and the assessment of plant cover, there are chapters addressing line-intercept sampling, the use of nearest-neighbour distances, and variable sized plots. The second section deals with individuals that move, such as birds, mammals, reptiles, fish, etc. Approaches discussed include double-observer sampling, removal sampling, capture-recapture methods and distance sampling. The final section deals with the measurement of species richness; species diversity; species-abundance distributions; and other aspects of diversity such as evenness, similarity, turnover and rarity. This is an essential reference for anyone involved in advanced undergraduate or postgraduate ecological research and teaching, or those planning and carrying out data analysis as part of conservation survey and monitoring programmes.

Molecular Evolution

Author : Ziheng Yang
Publisher : Oxford University Press
ISBN 13 : 0199602603
Total Pages : 509 pages
Book Rating : 4.1/5 (996 download)

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Book Synopsis Molecular Evolution by : Ziheng Yang

Download or read book Molecular Evolution written by Ziheng Yang and published by Oxford University Press. This book was released on 2014 with total page 509 pages. Available in PDF, EPUB and Kindle. Book excerpt: Studies of evolution at the molecular level have experienced phenomenal growth in the last few decades, due to rapid accumulation of genetic sequence data, improved computer hardware and software, and the development of sophisticated analytical methods. The flood of genomic data has generated an acute need for powerful statistical methods and efficient computational algorithms to enable their effective analysis and interpretation. Molecular Evolution: a statistical approach presents and explains modern statistical methods and computational algorithms for the comparative analysis of genetic sequence data in the fields of molecular evolution, molecular phylogenetics, statistical phylogeography, and comparative genomics. Written by an expert in the field, the book emphasizes conceptual understanding rather than mathematical proofs. The text is enlivened with numerous examples of real data analysis and numerical calculations to illustrate the theory, in addition to the working problems at the end of each chapter. The coverage of maximum likelihood and Bayesian methods are in particular up-to-date, comprehensive, and authoritative. This advanced textbook is aimed at graduate level students and professional researchers (both empiricists and theoreticians) in the fields of bioinformatics and computational biology, statistical genomics, evolutionary biology, molecular systematics, and population genetics. It will also be of relevance and use to a wider audience of applied statisticians, mathematicians, and computer scientists working in computational biology.

Forest Measurements

Author : Joan DeYoung
Publisher :
ISBN 13 :
Total Pages : 159 pages
Book Rating : 4.:/5 (1 download)

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Book Synopsis Forest Measurements by : Joan DeYoung

Download or read book Forest Measurements written by Joan DeYoung and published by . This book was released on 2016 with total page 159 pages. Available in PDF, EPUB and Kindle. Book excerpt: "This is a forest measurements textbook written for field technicians. Silvicultural applications and illustrations are provided to demonstrate the relevance of the measurements. Special “technique tips” for each skill are intended to help increase data collection accuracy and confidence. These include how to avoid common pitfalls, effective short cuts, and essentials for recording field data correctly. The emphasis is on elementary skills; it is not intended to be a timber cruising guide"--BC Campus website.

The Timetree of Life

Author : S. Blair Hedges
Publisher : OUP Oxford
ISBN 13 : 019160898X
Total Pages : 1237 pages
Book Rating : 4.1/5 (916 download)

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Book Synopsis The Timetree of Life by : S. Blair Hedges

Download or read book The Timetree of Life written by S. Blair Hedges and published by OUP Oxford. This book was released on 2009-04-23 with total page 1237 pages. Available in PDF, EPUB and Kindle. Book excerpt: The evolutionary history of life includes two primary components: phylogeny and timescale. Phylogeny refers to the branching order (relationships) of species or other taxa within a group and is crucial for understanding the inheritance of traits and for erecting classifications. However, a timescale is equally important because it provides a way to compare phylogeny directly with the evolution of other organisms and with planetary history such as geology, climate, extraterrestrialimpacts, and other features.The Timetree of Life is the first reference book to synthesize the wealth of information relating to the temporal component of phylogenetic trees. In the past, biologists have relied exclusively upon the fossil record to infer an evolutionary timescale. However, recent revolutionary advances in molecular biology have made it possible to not only estimate the relationships of many groups of organisms, but also to estimate their times of divergence with molecular clocks. The routineestimation and utilization of these so-called 'time-trees' could add exciting new dimensions to biology including enhanced opportunities to integrate large molecular data sets with fossil and biogeographic evidence (and thereby foster greater communication between molecular and traditional systematists). Theycould help estimate not only ancestral character states but also evolutionary rates in numerous categories of organismal phenotype; establish more reliable associations between causal historical processes and biological outcomes; develop a universally standardized scheme for biological classifications; and generally promote novel avenues of thought in many arenas of comparative evolutionary biology.This authoritative reference work brings together, for the first time, experts on all major groups of organisms to assemble a timetree of life. The result is a comprehensive resource on evolutionary history which will be an indispensable reference for scientists, educators, and students in the life sciences, earth sciences, and molecular biology. For each major group of organism, a representative is illustrated and a timetree of families and higher taxonomic groups is shown. Basic aspects ofthe evolutionary history of the group, the fossil record, and competing hypotheses of relationships are discussed. Details of the divergence times are presented for each node in the timetree, and primary literature references are included. The book is complemented by an online database(www.timetree.net) which allows researchers to both deposit and retrieve data.

Comprehensive Database of Diameter-based Biomass Regressions for North American Tree Species

Author : Jennifer Caroline Jenkins
Publisher :
ISBN 13 :
Total Pages : 52 pages
Book Rating : 4.:/5 (319 download)

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Book Synopsis Comprehensive Database of Diameter-based Biomass Regressions for North American Tree Species by : Jennifer Caroline Jenkins

Download or read book Comprehensive Database of Diameter-based Biomass Regressions for North American Tree Species written by Jennifer Caroline Jenkins and published by . This book was released on 2004 with total page 52 pages. Available in PDF, EPUB and Kindle. Book excerpt: A database consisting of 2,640 equations compiled from the literature for predicting the biomass of trees and tree components from diameter measurements of species found in North America. Bibliographic information, geographic locations, diameter limits, diameter and biomass units, equation forms, statistical errors, and coefficients are provided for each equation, along with examples of how to use the database. The CD-ROM included with the paper version of this publication contains the complete database (Table 3) in spreadsheet format (Microsoft Excel 2002® with Windows XP®). The database files can also be viewed in both spreadsheet and pdf formats by directing your browser to the Global Change page at http://www.fs.fed.us/ne/global/pubs/books/index.html

Computational Phylogenetics

Author : Tandy Warnow
Publisher : Cambridge University Press
ISBN 13 : 1107184711
Total Pages : 399 pages
Book Rating : 4.1/5 (71 download)

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Book Synopsis Computational Phylogenetics by : Tandy Warnow

Download or read book Computational Phylogenetics written by Tandy Warnow and published by Cambridge University Press. This book was released on 2018 with total page 399 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book presents the foundations of phylogeny estimation and technical material enabling researchers to develop improved computational methods.

Measuring Biological Diversity

Author : Anne E. Magurran
Publisher : John Wiley & Sons
ISBN 13 : 1118687922
Total Pages : 274 pages
Book Rating : 4.1/5 (186 download)

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Book Synopsis Measuring Biological Diversity by : Anne E. Magurran

Download or read book Measuring Biological Diversity written by Anne E. Magurran and published by John Wiley & Sons. This book was released on 2013-04-18 with total page 274 pages. Available in PDF, EPUB and Kindle. Book excerpt: This accessible and timely book provides a comprehensive overview of how to measure biodiversity. The book highlights new developments, including innovative approaches to measuring taxonomic distinctness and estimating species richness, and evaluates these alongside traditional methods such as species abundance distributions, and diversity and evenness statistics. Helps the reader quantify and interpret patterns of ecological diversity, focusing on the measurement and estimation of species richness and abundance. Explores the concept of ecological diversity, bringing new perspectives to a field beset by contradictory views and advice. Discussion spans issues such as the meaning of community in the context of ecological diversity, scales of diversity and distribution of diversity among taxa Highlights advances in measurement paying particular attention to new techniques such as species richness estimation, application of measures of diversity to conservation and environmental management and addressing sampling issues Includes worked examples of key methods in helping people to understand the techniques and use available computer packages more effectively

Bioinformatics and Phylogenetics

Author : Tandy Warnow
Publisher : Springer
ISBN 13 : 3030108376
Total Pages : 426 pages
Book Rating : 4.0/5 (31 download)

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Book Synopsis Bioinformatics and Phylogenetics by : Tandy Warnow

Download or read book Bioinformatics and Phylogenetics written by Tandy Warnow and published by Springer. This book was released on 2019-04-08 with total page 426 pages. Available in PDF, EPUB and Kindle. Book excerpt: This volume presents a compelling collection of state-of-the-art work in algorithmic computational biology, honoring the legacy of Professor Bernard M.E. Moret in this field. Reflecting the wide-ranging influences of Prof. Moret’s research, the coverage encompasses such areas as phylogenetic tree and network estimation, genome rearrangements, cancer phylogeny, species trees, divide-and-conquer strategies, and integer linear programming. Each self-contained chapter provides an introduction to a cutting-edge problem of particular computational and mathematical interest. Topics and features: addresses the challenges in developing accurate and efficient software for the NP-hard maximum likelihood phylogeny estimation problem; describes the inference of species trees, covering strategies to scale phylogeny estimation methods to large datasets, and the construction of taxonomic supertrees; discusses the inference of ultrametric distances from additive distance matrices, and the inference of ancestral genomes under genome rearrangement events; reviews different techniques for inferring evolutionary histories in cancer, from the use of chromosomal rearrangements to tumor phylogenetics approaches; examines problems in phylogenetic networks, including questions relating to discrete mathematics, and issues of statistical estimation; highlights how evolution can provide a framework within which to understand comparative and functional genomics; provides an introduction to Integer Linear Programming and its use in computational biology, including its use for solving the Traveling Salesman Problem. Offering an invaluable source of insights for computer scientists, applied mathematicians, and statisticians, this illuminating volume will also prove useful for graduate courses on computational biology and bioinformatics.

Urban Biodiversity

Author : Alessandro Ossola
Publisher : Routledge
ISBN 13 : 1315402564
Total Pages : 471 pages
Book Rating : 4.3/5 (154 download)

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Book Synopsis Urban Biodiversity by : Alessandro Ossola

Download or read book Urban Biodiversity written by Alessandro Ossola and published by Routledge. This book was released on 2017-11-28 with total page 471 pages. Available in PDF, EPUB and Kindle. Book excerpt: Urban biodiversity is an increasingly popular topic among researchers. Worldwide, thousands of research projects are unravelling how urbanisation impacts the biodiversity of cities and towns, as well as its benefits for people and the environment through ecosystem services. Exciting scientific discoveries are made on a daily basis. However, researchers often lack time and opportunity to communicate these findings to the community and those in charge of managing, planning and designing for urban biodiversity. On the other hand, urban practitioners frequently ask researchers for more comprehensible information and actionable tools to guide their actions. This book is designed to fill this cultural and communicative gap by discussing a selection of topics related to urban biodiversity, as well as its benefits for people and the urban environment. It provides an interdisciplinary overview of scientifically grounded knowledge vital for current and future practitioners in charge of urban biodiversity management, its conservation and integration into urban planning. Topics covered include pests and invasive species, rewilding habitats, the contribution of a diverse urban agriculture to food production, implications for human well-being, and how to engage the public with urban conservation strategies. For the first time, world-leading researchers from five continents convene to offer a global interdisciplinary perspective on urban biodiversity narrated with a simple but rigorous language. This book synthesizes research at a level suitable for both students and professionals working in nature conservation and urban planning and management.

Bayesian Evolutionary Analysis with BEAST

Author : Alexei J. Drummond
Publisher : Cambridge University Press
ISBN 13 : 1316298345
Total Pages : 263 pages
Book Rating : 4.3/5 (162 download)

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Book Synopsis Bayesian Evolutionary Analysis with BEAST by : Alexei J. Drummond

Download or read book Bayesian Evolutionary Analysis with BEAST written by Alexei J. Drummond and published by Cambridge University Press. This book was released on 2015-08-06 with total page 263 pages. Available in PDF, EPUB and Kindle. Book excerpt: What are the models used in phylogenetic analysis and what exactly is involved in Bayesian evolutionary analysis using Markov chain Monte Carlo (MCMC) methods? How can you choose and apply these models, which parameterisations and priors make sense, and how can you diagnose Bayesian MCMC when things go wrong? These are just a few of the questions answered in this comprehensive overview of Bayesian approaches to phylogenetics. This practical guide: • Addresses the theoretical aspects of the field • Advises on how to prepare and perform phylogenetic analysis • Helps with interpreting analyses and visualisation of phylogenies • Describes the software architecture • Helps developing BEAST 2.2 extensions to allow these models to be extended further. With an accompanying website providing example files and tutorials (http://beast2.org/), this one-stop reference to applying the latest phylogenetic models in BEAST 2 will provide essential guidance for all users – from those using phylogenetic tools, to computational biologists and Bayesian statisticians.

Coalescent Theory

Author : John Wakely
Publisher : Roberts
ISBN 13 : 9780974707754
Total Pages : 0 pages
Book Rating : 4.7/5 (77 download)

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Book Synopsis Coalescent Theory by : John Wakely

Download or read book Coalescent Theory written by John Wakely and published by Roberts. This book was released on 2016-04-22 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: This textbook provides the foundation for molecular population genetics and genomics. It shows the conceptual framework for studies of DNA sequence variation within species, and is the source of essential tools for making inferences about mutation, recombination, population structure and natural selection from DNA sequence data.

The Ancestor's Tale

Author : Richard Dawkins
Publisher : Houghton Mifflin Harcourt
ISBN 13 : 9780618619160
Total Pages : 696 pages
Book Rating : 4.6/5 (191 download)

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Book Synopsis The Ancestor's Tale by : Richard Dawkins

Download or read book The Ancestor's Tale written by Richard Dawkins and published by Houghton Mifflin Harcourt. This book was released on 2004 with total page 696 pages. Available in PDF, EPUB and Kindle. Book excerpt: A renowned biologist provides a sweeping chronicle of more than four billion years of life on Earth, shedding new light on evolutionary theory and history, sexual selection, speciation, extinction, and genetics.