Chapter 6 Likelihood Inference
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Fast Inference in Generalized Linear Models Via Expected Log-Likelihoods
Fast inference in generalized linear models via expected log-likelihoods Alexandro D. Ramirez 1,*, Liam Paninski 2 1 Weill Cornell Medical College, NY. NY, U.S.A * [email protected] 2 Columbia University Department of Statistics, Center for Theoretical Neuroscience, Grossman Center for the Statistics of Mind, Kavli Institute for Brain Science, NY. NY, U.S.A Abstract Generalized linear models play an essential role in a wide variety of statistical applications. This paper discusses an approximation of the likelihood in these models that can greatly facilitate compu- tation. The basic idea is to replace a sum that appears in the exact log-likelihood by an expectation over the model covariates; the resulting \expected log-likelihood" can in many cases be computed sig- nificantly faster than the exact log-likelihood. In many neuroscience experiments the distribution over model covariates is controlled by the experimenter and the expected log-likelihood approximation be- comes particularly useful; for example, estimators based on maximizing this expected log-likelihood (or a penalized version thereof) can often be obtained with orders of magnitude computational savings com- pared to the exact maximum likelihood estimators. A risk analysis establishes that these maximum EL estimators often come with little cost in accuracy (and in some cases even improved accuracy) compared to standard maximum likelihood estimates. Finally, we find that these methods can significantly de- crease the computation time of marginal likelihood calculations for model selection and of Markov chain Monte Carlo methods for sampling from the posterior parameter distribution. We illustrate our results by applying these methods to a computationally-challenging dataset of neural spike trains obtained via large-scale multi-electrode recordings in the primate retina. -
The Gompertz Distribution and Maximum Likelihood Estimation of Its Parameters - a Revision
Max-Planck-Institut für demografi sche Forschung Max Planck Institute for Demographic Research Konrad-Zuse-Strasse 1 · D-18057 Rostock · GERMANY Tel +49 (0) 3 81 20 81 - 0; Fax +49 (0) 3 81 20 81 - 202; http://www.demogr.mpg.de MPIDR WORKING PAPER WP 2012-008 FEBRUARY 2012 The Gompertz distribution and Maximum Likelihood Estimation of its parameters - a revision Adam Lenart ([email protected]) This working paper has been approved for release by: James W. Vaupel ([email protected]), Head of the Laboratory of Survival and Longevity and Head of the Laboratory of Evolutionary Biodemography. © Copyright is held by the authors. Working papers of the Max Planck Institute for Demographic Research receive only limited review. Views or opinions expressed in working papers are attributable to the authors and do not necessarily refl ect those of the Institute. The Gompertz distribution and Maximum Likelihood Estimation of its parameters - a revision Adam Lenart November 28, 2011 Abstract The Gompertz distribution is widely used to describe the distribution of adult deaths. Previous works concentrated on formulating approximate relationships to char- acterize it. However, using the generalized integro-exponential function Milgram (1985) exact formulas can be derived for its moment-generating function and central moments. Based on the exact central moments, higher accuracy approximations can be defined for them. In demographic or actuarial applications, maximum-likelihood estimation is often used to determine the parameters of the Gompertz distribution. By solving the maximum-likelihood estimates analytically, the dimension of the optimization problem can be reduced to one both in the case of discrete and continuous data. -
The Likelihood Principle
1 01/28/99 ãMarc Nerlove 1999 Chapter 1: The Likelihood Principle "What has now appeared is that the mathematical concept of probability is ... inadequate to express our mental confidence or diffidence in making ... inferences, and that the mathematical quantity which usually appears to be appropriate for measuring our order of preference among different possible populations does not in fact obey the laws of probability. To distinguish it from probability, I have used the term 'Likelihood' to designate this quantity; since both the words 'likelihood' and 'probability' are loosely used in common speech to cover both kinds of relationship." R. A. Fisher, Statistical Methods for Research Workers, 1925. "What we can find from a sample is the likelihood of any particular value of r [a parameter], if we define the likelihood as a quantity proportional to the probability that, from a particular population having that particular value of r, a sample having the observed value r [a statistic] should be obtained. So defined, probability and likelihood are quantities of an entirely different nature." R. A. Fisher, "On the 'Probable Error' of a Coefficient of Correlation Deduced from a Small Sample," Metron, 1:3-32, 1921. Introduction The likelihood principle as stated by Edwards (1972, p. 30) is that Within the framework of a statistical model, all the information which the data provide concerning the relative merits of two hypotheses is contained in the likelihood ratio of those hypotheses on the data. ...For a continuum of hypotheses, this principle -
On the Meaning and Use of Kurtosis
Psychological Methods Copyright 1997 by the American Psychological Association, Inc. 1997, Vol. 2, No. 3,292-307 1082-989X/97/$3.00 On the Meaning and Use of Kurtosis Lawrence T. DeCarlo Fordham University For symmetric unimodal distributions, positive kurtosis indicates heavy tails and peakedness relative to the normal distribution, whereas negative kurtosis indicates light tails and flatness. Many textbooks, however, describe or illustrate kurtosis incompletely or incorrectly. In this article, kurtosis is illustrated with well-known distributions, and aspects of its interpretation and misinterpretation are discussed. The role of kurtosis in testing univariate and multivariate normality; as a measure of departures from normality; in issues of robustness, outliers, and bimodality; in generalized tests and estimators, as well as limitations of and alternatives to the kurtosis measure [32, are discussed. It is typically noted in introductory statistics standard deviation. The normal distribution has a kur- courses that distributions can be characterized in tosis of 3, and 132 - 3 is often used so that the refer- terms of central tendency, variability, and shape. With ence normal distribution has a kurtosis of zero (132 - respect to shape, virtually every textbook defines and 3 is sometimes denoted as Y2)- A sample counterpart illustrates skewness. On the other hand, another as- to 132 can be obtained by replacing the population pect of shape, which is kurtosis, is either not discussed moments with the sample moments, which gives or, worse yet, is often described or illustrated incor- rectly. Kurtosis is also frequently not reported in re- ~(X i -- S)4/n search articles, in spite of the fact that virtually every b2 (•(X i - ~')2/n)2' statistical package provides a measure of kurtosis. -
The Probability Lifesaver: Order Statistics and the Median Theorem
The Probability Lifesaver: Order Statistics and the Median Theorem Steven J. Miller December 30, 2015 Contents 1 Order Statistics and the Median Theorem 3 1.1 Definition of the Median 5 1.2 Order Statistics 10 1.3 Examples of Order Statistics 15 1.4 TheSampleDistributionoftheMedian 17 1.5 TechnicalboundsforproofofMedianTheorem 20 1.6 TheMedianofNormalRandomVariables 22 2 • Greetings again! In this supplemental chapter we develop the theory of order statistics in order to prove The Median Theorem. This is a beautiful result in its own, but also extremely important as a substitute for the Central Limit Theorem, and allows us to say non- trivial things when the CLT is unavailable. Chapter 1 Order Statistics and the Median Theorem The Central Limit Theorem is one of the gems of probability. It’s easy to use and its hypotheses are satisfied in a wealth of problems. Many courses build towards a proof of this beautiful and powerful result, as it truly is ‘central’ to the entire subject. Not to detract from the majesty of this wonderful result, however, what happens in those instances where it’s unavailable? For example, one of the key assumptions that must be met is that our random variables need to have finite higher moments, or at the very least a finite variance. What if we were to consider sums of Cauchy random variables? Is there anything we can say? This is not just a question of theoretical interest, of mathematicians generalizing for the sake of generalization. The following example from economics highlights why this chapter is more than just of theoretical interest. -
A Family of Skew-Normal Distributions for Modeling Proportions and Rates with Zeros/Ones Excess
S S symmetry Article A Family of Skew-Normal Distributions for Modeling Proportions and Rates with Zeros/Ones Excess Guillermo Martínez-Flórez 1, Víctor Leiva 2,* , Emilio Gómez-Déniz 3 and Carolina Marchant 4 1 Departamento de Matemáticas y Estadística, Facultad de Ciencias Básicas, Universidad de Córdoba, Montería 14014, Colombia; [email protected] 2 Escuela de Ingeniería Industrial, Pontificia Universidad Católica de Valparaíso, 2362807 Valparaíso, Chile 3 Facultad de Economía, Empresa y Turismo, Universidad de Las Palmas de Gran Canaria and TIDES Institute, 35001 Canarias, Spain; [email protected] 4 Facultad de Ciencias Básicas, Universidad Católica del Maule, 3466706 Talca, Chile; [email protected] * Correspondence: [email protected] or [email protected] Received: 30 June 2020; Accepted: 19 August 2020; Published: 1 September 2020 Abstract: In this paper, we consider skew-normal distributions for constructing new a distribution which allows us to model proportions and rates with zero/one inflation as an alternative to the inflated beta distributions. The new distribution is a mixture between a Bernoulli distribution for explaining the zero/one excess and a censored skew-normal distribution for the continuous variable. The maximum likelihood method is used for parameter estimation. Observed and expected Fisher information matrices are derived to conduct likelihood-based inference in this new type skew-normal distribution. Given the flexibility of the new distributions, we are able to show, in real data scenarios, the good performance of our proposal. Keywords: beta distribution; centered skew-normal distribution; maximum-likelihood methods; Monte Carlo simulations; proportions; R software; rates; zero/one inflated data 1. -
Theoretical Statistics. Lecture 5. Peter Bartlett
Theoretical Statistics. Lecture 5. Peter Bartlett 1. U-statistics. 1 Outline of today’s lecture We’ll look at U-statistics, a family of estimators that includes many interesting examples. We’ll study their properties: unbiased, lower variance, concentration (via an application of the bounded differences inequality), asymptotic variance, asymptotic distribution. (See Chapter 12 of van der Vaart.) First, we’ll consider the standard unbiased estimate of variance—a special case of a U-statistic. 2 Variance estimates n 1 s2 = (X − X¯ )2 n n − 1 i n Xi=1 n n 1 = (X − X¯ )2 +(X − X¯ )2 2n(n − 1) i n j n Xi=1 Xj=1 n n 1 2 = (X − X¯ ) − (X − X¯ ) 2n(n − 1) i n j n Xi=1 Xj=1 n n 1 1 = (X − X )2 n(n − 1) 2 i j Xi=1 Xj=1 1 1 = (X − X )2 . n 2 i j 2 Xi<j 3 Variance estimates This is unbiased for i.i.d. data: 1 Es2 = E (X − X )2 n 2 1 2 1 = E ((X − EX ) − (X − EX ))2 2 1 1 2 2 1 2 2 = E (X1 − EX1) +(X2 − EX2) 2 2 = E (X1 − EX1) . 4 U-statistics Definition: A U-statistic of order r with kernel h is 1 U = n h(Xi1 ,...,Xir ), r iX⊆[n] where h is symmetric in its arguments. [If h is not symmetric in its arguments, we can also average over permutations.] “U” for “unbiased.” Introduced by Wassily Hoeffding in the 1940s. 5 U-statistics Theorem: [Halmos] θ (parameter, i.e., function defined on a family of distributions) admits an unbiased estimator (ie: for all sufficiently large n, some function of the i.i.d. -
Lecture 14 Testing for Kurtosis
9/8/2016 CHE384, From Data to Decisions: Measurement, Kurtosis Uncertainty, Analysis, and Modeling • For any distribution, the kurtosis (sometimes Lecture 14 called the excess kurtosis) is defined as Testing for Kurtosis 3 (old notation = ) • For a unimodal, symmetric distribution, Chris A. Mack – a positive kurtosis means “heavy tails” and a more Adjunct Associate Professor peaked center compared to a normal distribution – a negative kurtosis means “light tails” and a more spread center compared to a normal distribution http://www.lithoguru.com/scientist/statistics/ © Chris Mack, 2016Data to Decisions 1 © Chris Mack, 2016Data to Decisions 2 Kurtosis Examples One Impact of Excess Kurtosis • For the Student’s t • For a normal distribution, the sample distribution, the variance will have an expected value of s2, excess kurtosis is and a variance of 6 2 4 1 for DF > 4 ( for DF ≤ 4 the kurtosis is infinite) • For a distribution with excess kurtosis • For a uniform 2 1 1 distribution, 1 2 © Chris Mack, 2016Data to Decisions 3 © Chris Mack, 2016Data to Decisions 4 Sample Kurtosis Sample Kurtosis • For a sample of size n, the sample kurtosis is • An unbiased estimator of the sample excess 1 kurtosis is ∑ ̅ 1 3 3 1 6 1 2 3 ∑ ̅ Standard Error: • For large n, the sampling distribution of 1 24 2 1 approaches Normal with mean 0 and variance 2 1 of 24/n 3 5 • For small samples, this estimator is biased D. N. Joanes and C. A. Gill, “Comparing Measures of Sample Skewness and Kurtosis”, The Statistician, 47(1),183–189 (1998). -
11. Parameter Estimation
11. Parameter Estimation Chris Piech and Mehran Sahami May 2017 We have learned many different distributions for random variables and all of those distributions had parame- ters: the numbers that you provide as input when you define a random variable. So far when we were working with random variables, we either were explicitly told the values of the parameters, or, we could divine the values by understanding the process that was generating the random variables. What if we don’t know the values of the parameters and we can’t estimate them from our own expert knowl- edge? What if instead of knowing the random variables, we have a lot of examples of data generated with the same underlying distribution? In this chapter we are going to learn formal ways of estimating parameters from data. These ideas are critical for artificial intelligence. Almost all modern machine learning algorithms work like this: (1) specify a probabilistic model that has parameters. (2) Learn the value of those parameters from data. Parameters Before we dive into parameter estimation, first let’s revisit the concept of parameters. Given a model, the parameters are the numbers that yield the actual distribution. In the case of a Bernoulli random variable, the single parameter was the value p. In the case of a Uniform random variable, the parameters are the a and b values that define the min and max value. Here is a list of random variables and the corresponding parameters. From now on, we are going to use the notation q to be a vector of all the parameters: Distribution Parameters Bernoulli(p) q = p Poisson(l) q = l Uniform(a,b) q = (a;b) Normal(m;s 2) q = (m;s 2) Y = mX + b q = (m;b) In the real world often you don’t know the “true” parameters, but you get to observe data. -
Statistical Theory
Statistical Theory Prof. Gesine Reinert November 23, 2009 Aim: To review and extend the main ideas in Statistical Inference, both from a frequentist viewpoint and from a Bayesian viewpoint. This course serves not only as background to other courses, but also it will provide a basis for developing novel inference methods when faced with a new situation which includes uncertainty. Inference here includes estimating parameters and testing hypotheses. Overview • Part 1: Frequentist Statistics { Chapter 1: Likelihood, sufficiency and ancillarity. The Factoriza- tion Theorem. Exponential family models. { Chapter 2: Point estimation. When is an estimator a good estima- tor? Covering bias and variance, information, efficiency. Methods of estimation: Maximum likelihood estimation, nuisance parame- ters and profile likelihood; method of moments estimation. Bias and variance approximations via the delta method. { Chapter 3: Hypothesis testing. Pure significance tests, signifi- cance level. Simple hypotheses, Neyman-Pearson Lemma. Tests for composite hypotheses. Sample size calculation. Uniformly most powerful tests, Wald tests, score tests, generalised likelihood ratio tests. Multiple tests, combining independent tests. { Chapter 4: Interval estimation. Confidence sets and their con- nection with hypothesis tests. Approximate confidence intervals. Prediction sets. { Chapter 5: Asymptotic theory. Consistency. Asymptotic nor- mality of maximum likelihood estimates, score tests. Chi-square approximation for generalised likelihood ratio tests. Likelihood confidence regions. Pseudo-likelihood tests. • Part 2: Bayesian Statistics { Chapter 6: Background. Interpretations of probability; the Bayesian paradigm: prior distribution, posterior distribution, predictive distribution, credible intervals. Nuisance parameters are easy. 1 { Chapter 7: Bayesian models. Sufficiency, exchangeability. De Finetti's Theorem and its intepretation in Bayesian statistics. { Chapter 8: Prior distributions. Conjugate priors. -
Empirical Bayes Methods for Combining Likelihoods Bradley EFRON
Empirical Bayes Methods for Combining Likelihoods Bradley EFRON Supposethat several independent experiments are observed,each one yieldinga likelihoodLk (0k) for a real-valuedparameter of interestOk. For example,Ok might be the log-oddsratio for a 2 x 2 table relatingto the kth populationin a series of medical experiments.This articleconcerns the followingempirical Bayes question:How can we combineall of the likelihoodsLk to get an intervalestimate for any one of the Ok'S, say 01? The resultsare presented in the formof a realisticcomputational scheme that allows model buildingand model checkingin the spiritof a regressionanalysis. No specialmathematical forms are requiredfor the priorsor the likelihoods.This schemeis designedto take advantageof recentmethods that produceapproximate numerical likelihoodsLk(6k) even in very complicatedsituations, with all nuisanceparameters eliminated. The empiricalBayes likelihood theoryis extendedto situationswhere the Ok'S have a regressionstructure as well as an empiricalBayes relationship.Most of the discussionis presentedin termsof a hierarchicalBayes model and concernshow such a model can be implementedwithout requiringlarge amountsof Bayesianinput. Frequentist approaches, such as bias correctionand robustness,play a centralrole in the methodology. KEY WORDS: ABC method;Confidence expectation; Generalized linear mixed models;Hierarchical Bayes; Meta-analysis for likelihoods;Relevance; Special exponential families. 1. INTRODUCTION for 0k, also appearing in Table 1, is A typical statistical analysis blends data from indepen- dent experimental units into a single combined inference for a parameter of interest 0. Empirical Bayes, or hierar- SDk ={ ak +.S + bb + .5 +k + -5 dk + .5 chical or meta-analytic analyses, involve a second level of SD13 = .61, for example. data acquisition. Several independent experiments are ob- The statistic 0k is an estimate of the true log-odds ratio served, each involving many units, but each perhaps having 0k in the kth experimental population, a different value of the parameter 0. -
Stat 3701 Lecture Notes: Statistical Models, Part II
Stat 3701 Lecture Notes: Statistical Models, Part II Charles J. Geyer August 12, 2020 1 License This work is licensed under a Creative Commons Attribution-ShareAlike 4.0 International License (http: //creativecommons.org/licenses/by-sa/4.0/). 2 R • The version of R used to make this document is 4.0.2. • The version of the rmarkdown package used to make this document is 2.3. • The version of the alabama package used to make this document is 2015.3.1. • The version of the numDeriv package used to make this document is 2016.8.1.1. 3 General Statistical Models The time has come to learn some theory. This is a preview of STAT 5101–5102. We don’t need to learn much theory. We will proceed with the general strategy of all introductory statistics: don’t derive anything, just tell you stuff. 3.1 Probability Models 3.1.1 Kinds of Probability Theory There are two kinds of probability theory. There is the kind you will learn in STAT 5101-5102 (or 4101–4102, which is more or less the same except for leaving out the multivariable stuff). The material covered goes back hundreds of years, some of it discovered in the early 1600’s. And there is the kind you would learn in MATH 8651–8652 if you could take it, which no undergraduate does (it is a very hard Ph. D. level math course). The material covered goes back to 1933. It is all “new math”. These two kinds of probability can be called classical and measure-theoretic, respectively.