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Parsimony and Bayesian phylogenetics

Pablo A. Goloboff and Diego Pol

in Parsimony, Phylogeny, and Genomics

Published in print:
2006
Published Online:
September 2007
ISBN:
9780199297306
eISBN:
9780191713729
Item type:
chapter
Publisher:
Oxford University Press
DOI:
10.1093/acprof:oso/9780199297306.003.0008
Subject:
Biology, Evolutionary Biology / Genetics

The intent of a statistically-based phylogenetic method is to estimate tree topologies and values of possibly relevant parameters, as well as the uncertainty inherent in those estimations. A method ... More


The conservation biologist's toolbox – principles for the design and analysis of conservation studies

Corey J. A. Bradshaw and Barry W. Brook

in Conservation Biology for All

Published in print:
2010
Published Online:
February 2010
ISBN:
9780199554232
eISBN:
9780191720666
Item type:
chapter
Publisher:
Oxford University Press
DOI:
10.1093/acprof:oso/9780199554232.003.0017
Subject:
Biology, Ecology, Biodiversity / Conservation Biology

In this chapter, Corey J. A. Bradshaw and Barry W. Brook, discuss measures of biodiversity patterns followed by an overview of experimental design and associated statistical paradigms. Conservation ... More


Bayesian mapping of Hodgkin’s disease in France

A. Mollié

in Spatial Epidemiology: Methods and Applications

Published in print:
2001
Published Online:
September 2009
ISBN:
9780198515326
eISBN:
9780191723667
Item type:
chapter
Publisher:
Oxford University Press
DOI:
10.1093/acprof:oso/9780198515326.003.0015
Subject:
Public Health and Epidemiology, Public Health, Epidemiology

This chapter presents a case study mapping mortality rates for Hodgkin's disease in French departments. It illustrates and compares various methods for estimating rates for rare diseases. Some ... More


Adaptive Psychophysical Procedures

Zhong-Lin Lu and Barbara Dosher

in Visual Psychophysics: From Laboratory to Theory

Published in print:
2013
Published Online:
May 2014
ISBN:
9780262019453
eISBN:
9780262314930
Item type:
chapter
Publisher:
The MIT Press
DOI:
10.7551/mitpress/9780262019453.003.0011
Subject:
Psychology, Vision

Adaptive procedures are developed to reduce the burden of data collection in psychophysics by creating more efficient experimental test designs and methods of estimating either statistics or ... More


Bayesian approaches to disease mapping

J. C. Wakefield, N. G. Best, and L. Waller

in Spatial Epidemiology: Methods and Applications

Published in print:
2001
Published Online:
September 2009
ISBN:
9780198515326
eISBN:
9780191723667
Item type:
chapter
Publisher:
Oxford University Press
DOI:
10.1093/acprof:oso/9780198515326.003.0007
Subject:
Public Health and Epidemiology, Public Health, Epidemiology

This chapter examines the underlying assumptions of Bayesian methods for disease mapping and discusses mathematical details. The chapter proceeds as follows. Section 7.2 describes a three-state ... More


The Interactive Learning Problem

H. Peyton Young

in Strategic Learning and its Limits

Published in print:
2004
Published Online:
October 2011
ISBN:
9780199269181
eISBN:
9780191699375
Item type:
chapter
Publisher:
Oxford University Press
DOI:
10.1093/acprof:oso/9780199269181.003.0001
Subject:
Economics and Finance, Econometrics

This chapter begins with a discussion of the difficulties posed by interactive learning. It then identifies two competing schools of thought in game theory. One school points optimistically to ... More


Bayesian models in biostatistics and medicine

Peter Müller

in Bayesian Theory and Applications

Published in print:
2013
Published Online:
May 2013
ISBN:
9780199695607
eISBN:
9780191744167
Item type:
chapter
Publisher:
Oxford University Press
DOI:
10.1093/acprof:oso/9780199695607.003.0028
Subject:
Mathematics, Probability / Statistics

This chapter surveys applications of Bayesian theory in biostatistics. It begins by discussing hierarchical models. Arguably the most tightly regulated and well controlled applications of statistical ... More


Info-Metrics and Statistical Inference: Continuous Problems

Amos Golan

in Foundations of Info-Metrics: Modeling, Inference, and Imperfect Information

Published in print:
2017
Published Online:
November 2017
ISBN:
9780199349524
eISBN:
9780199349555
Item type:
chapter
Publisher:
Oxford University Press
DOI:
10.1093/oso/9780199349524.003.0013
Subject:
Economics and Finance, Econometrics

In this chapter I concentrate on continuous inferential problems: problems where the dependent variable is continuous, such as classical regression problems. As in the previous chapter, using duality ... More


Molecular Phylogenetics and Diversification of South American Grass Mice, Genus Akodon: La Filogenética Molecular Y La Diversificación De Los Ratones Campestres De Sudamérica Del Genero Akodon

Margaret F. Smith and James L. Patton

in The Quintessential Naturalist: Honoring the Life and Legacy of Oliver P. Pearson

Published in print:
2007
Published Online:
March 2012
ISBN:
9780520098596
eISBN:
9780520916159
Item type:
chapter
Publisher:
University of California Press
DOI:
10.1525/california/9780520098596.003.0024
Subject:
Biology, Animal Biology

This chapter examines variation in the mitochondrial cytochrome b gene for 30 of the approximately 40 species of South American grass mice, genus Akodon. It observes that phylogenetic analyses ... More


Bayesian Model Specification: Heuristics And Examples

david draper

in Bayesian Theory and Applications

Published in print:
2013
Published Online:
May 2013
ISBN:
9780199695607
eISBN:
9780191744167
Item type:
chapter
Publisher:
Oxford University Press
DOI:
10.1093/acprof:oso/9780199695607.003.0020
Subject:
Mathematics, Probability / Statistics

This chapter discusses optimal Bayesian model specification. It examines three methods that may be helpful in moving toward an optimal-model-specification goal. These methods are: an approach called ... More


Molecular clock and estimation of species divergence times

Ziheng Yang

in Molecular Evolution: A Statistical Approach

Published in print:
2014
Published Online:
August 2014
ISBN:
9780199602605
eISBN:
9780191782251
Item type:
chapter
Publisher:
Oxford University Press
DOI:
10.1093/acprof:oso/9780199602605.003.0010
Subject:
Biology, Biomathematics / Statistics and Data Analysis / Complexity Studies, Evolutionary Biology / Genetics

This chapter discusses the hypothesis of the molecular clock and its use to date species divergences. It introduces various tests of the molecular clock as well as strategies to relax the clock in ... More


Sequence Evolution Models for Simultaneous Alignment and Phylogeny Reconstruction

Dirk Metzler and Roland Fleissner

in Sequence Alignment: Methods, Models, Concepts, and Strategies

Published in print:
2009
Published Online:
March 2012
ISBN:
9780520256972
eISBN:
9780520943742
Item type:
chapter
Publisher:
University of California Press
DOI:
10.1525/california/9780520256972.003.0005
Subject:
Biology, Evolutionary Biology / Genetics

This chapter reviews the statistical approaches for simultaneous alignment and phylogeny reconstruction. It focuses on the modeling of insertion and deletion events in a phylogenetic framework, and ... More


Subgroup analysis

Purushottam W Laud, Siva Sivaganesan, and Peter MüLler

in Bayesian Theory and Applications

Published in print:
2013
Published Online:
May 2013
ISBN:
9780199695607
eISBN:
9780191744167
Item type:
chapter
Publisher:
Oxford University Press
DOI:
10.1093/acprof:oso/9780199695607.003.0029
Subject:
Mathematics, Probability / Statistics

Subgroup analysis involves the comparison of treatment efficacies in a clinical trial among subgroups defined by baseline patient characteristics, such as gender and age. Better subgroup analysis ... More


Bayesian Variable Selection for Nowcasting Economic Time Series

Steven L. Scott and Hal R. Varian

in Economic Analysis of the Digital Economy

Published in print:
2015
Published Online:
September 2015
ISBN:
9780226206844
eISBN:
9780226206981
Item type:
chapter
Publisher:
University of Chicago Press
DOI:
10.7208/chicago/9780226206981.003.0004
Subject:
Economics and Finance, Development, Growth, and Environmental

We consider the problem of short-term time series forecasting (nowcasting) when there are more possible predictors than observations. The motivating example is the use of Google Trends search engine ... More


The Study Area and the Ancestral Pueblo Occupation

Scott G. Ortman, Donna M. Glowacki, Mark D. Varien, and C. David Johnson

in Emergence and Collapse of Early Villages: Models of Central Mesa Verde Archaeology

Published in print:
2012
Published Online:
September 2012
ISBN:
9780520270145
eISBN:
9780520951990
Item type:
chapter
Publisher:
University of California Press
DOI:
10.1525/california/9780520270145.003.0002
Subject:
Anthropology, American and Canadian Cultural Anthropology

A major effort of the Village Ecodynamics Project involved translating the archaeological record of the central Mesa Verde region into quantitative summaries of the actual ancestral Pueblo settlement ... More


Environmental Flow Relationships, Models, and Applications

Angela H. Arthington

in Environmental Flows: Saving Rivers in the Third Millennium

Published in print:
2012
Published Online:
May 2013
ISBN:
9780520273696
eISBN:
9780520953451
Item type:
chapter
Publisher:
University of California Press
DOI:
10.1525/california/9780520273696.003.0014
Subject:
Biology, Biodiversity / Conservation Biology

Environmental flow assessment and effective management require capacity to predict the future ecological condition of a river ecosystem after its flow regime has been altered. This chapter is devoted ... More


Learning to Make Accurate Predictions

Reza Shadmehr and Sandro Mussa-Ivaldi

in Biological Learning and Control: How the Brain Builds Representations, Predicts Events, and Makes Decisions

Published in print:
2012
Published Online:
August 2013
ISBN:
9780262016964
eISBN:
9780262301282
Item type:
chapter
Publisher:
The MIT Press
DOI:
10.7551/mitpress/9780262016964.003.0007
Subject:
Neuroscience, Research and Theory

This chapter considers some very simple learning problems to make accurate predictions. It reviews the least mean squared (LMS) algorithm. It shows that internal model is simply a link between motor ... More


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