Introduction to Bayesian Inference

Size: px
Start display at page:

Download "Introduction to Bayesian Inference"

Transcription

1 University of Pennsylvania EABCN Training School May 10, 2016

2 Bayesian Inference Ingredients of Bayesian Analysis: Likelihood function p(y φ) Prior density p(φ) Marginal data density p(y ) = p(y φ)p(φ)dφ Bayes Theorem: p(φ Y ) = p(y φ)p(φ) p(y )

3 Linear Regression / AR Models Consider AR(1) model: y t = y t 1 φ + u t, u t iidn(0, 1). Let x t = y t 1. Write as or y t = x tφ + u t, u t iidn(0, 1), Y = X φ + U. We can easily allow for multiple regressors. Assume φ is k 1. Notice: we treat the variance of the errors as know. The generalization to unknown variance is straightforward but tedious. Likelihood function: p(y φ) = (2π) T /2 exp { 1 } 2 (Y X φ) (Y X φ).

4 A Convenient Prior Prior: φ N ) { (0 k 1, τ 2 I k k, p(φ) = (2πτ 2 ) k/2 exp 1 } 2τ 2 φ φ Large τ means diffuse prior. Small τ means tight prior.

5 Deriving the Posterior Bayes Theorem: p(φ Y ) p(y φ)p(φ) { exp 1 } 2 [(Y X φ) (Y X φ) + τ 2 φ φ]. Guess: what if φ Y N( φ T, V T ). Then { p(θ Y ) exp 1 } 2 (φ φ T ) 1 V T (φ φ T ). Rewrite exponential term Y Y φ X Y Y X φ + φ X X φ + τ 2 φ φ = Y Y φ X Y Y X φ + φ (X X + τ 2 I)φ ( ) ( ) = φ (X X + τ 2 I) 1 X Y X X + τ 2 I ( ) φ (X X + τ 2 I) 1 X Y +Y Y Y X (X X + τ 2 I) 1 X Y.

6 Deriving the Posterior Exponential term is a quadratic function of φ. Deduce: posterior distribution of φ must be a multivariate normal distribution φ Y N( φ T, V T ) with φ T = (X X + τ 2 I) 1 X Y τ : τ 0: V T = (X X + τ 2 I) 1. φ Y approx ( ) N ˆφ mle, (X X ) 1. φ Y approx Pointmass at 0

7 Marginal Data Density Plays an important role in Bayesian model selection and averaging. Write p(y θ)p(θ) p(y ) = p(θ Y ) { = exp 1 } 2 [Y Y Y X (X X + τ 2 I) 1 X Y ] (2π) T /2 I + τ 2 X X 1/2. The exponential term measures the goodness-of-fit. I + τ 2 X X is a penalty for model complexity.

8 Posterior We will often abbreviate posterior distributions p(φ Y ) by π(φ) and posterior expectations of h(φ) by E π [h] = E π [h(φ)] = h(φ)π(φ)dφ = h(φ)p(φ Y )dφ. We will focus on algorithms that generate draws {φ i } N i=1 from posterior distributions of parameters in time series models. These draws can then be transformed into objects of interest, h(φ i ), and under suitable conditions a Monte Carlo average of the form h N = 1 N N h(φ i ) E π [h]. i=1 Strong law of large numbers (SLLN), central limit theorem (CLT)...

9 Direct Sampling In the simple linear regression model with Gaussian posterior it is possible to sample directly. For i = 1 to N, draw φ i from N ( φ, Vφ ). Provided that V π [h(φ)] < we can deduce from Kolmogorov s SLLN and the Lindeberg-Levy CLT that a.s. h N E π [h] N ( h N E π [h] ) = N ( 0, V π [h(φ)] ).

10 Decision Making The posterior expected loss associated with a decision δ( ) is given by ρ ( δ( ) Y ) = L ( θ, δ(y ) ) p(θ Y )dθ. Θ A Bayes decision is a decision that minimizes the posterior expected loss: δ (Y ) = argmin d ρ ( δ( ) Y ). Since in most applications it is not feasible to derive the posterior expected risk analytically, we replace ρ ( δ( ) Y ) by a Monte Carlo approximation of the form ρ N ( δ( ) Y ) = 1 N N L ( θ i, δ( ) ). i=1 A numerical approximation to the Bayes decision δ ( ) is then given by δ N(Y ) = argmin d ρ N ( δ( ) Y ).

11 Inference Point estimation: Quadratic loss: posterior mean Absolute error loss: posterior median Interval/Set estimation P π {θ C(Y )} = 1 α: highest posterior density sets equal-tail-probability intervals

12 Forecasting Example: h 1 y T +h = θ h y T + θ s u T +h s s=0 h-step ahead conditional distribution: y T +h (Y 1:T, θ) N (θ h y T, 1 ) θh. 1 θ Posterior predictive distribution: p(y T +h Y 1:T ) = p(y T +h y T, θ)p(θ Y 1:T )dθ. For each draw θ i from the posterior distribution p(θ Y 1:T ) sample a sequence of innovations u i T +1,..., ui T +h and compute y i T +h as a function of θ i, u i T +1,..., ui T +h, and Y 1:T.

13 Model Uncertainty Assign prior probabilities γ j,0 to models M j, j = 1,..., J. Posterior model probabilities are given by γ j,t = γ j,0 p(y M j ) J j=1 γ j,0p(y M j ), where p(y M j ) = p(y θ (j), M j )p(θ (j) M j )dθ (j) Log marginal data densities are one-step-ahead predictive scores: ln p(y M j ) T = ln p(y t θ (j), Y 1:t 1, M j )p(θ (j) Y 1:t 1, M j )dθ (j). t=1 Model averaging: J p(h Y ) = γ j,t p(h j (θ (j) ) Y, M j ). j=1

Bayesian Estimation of DSGE Models 1 Chapter 3: A Crash Course in Bayesian Inference

Bayesian Estimation of DSGE Models 1 Chapter 3: A Crash Course in Bayesian Inference 1 The views expressed in this paper are those of the authors and do not necessarily reflect the views of the Federal Reserve Board of Governors or the Federal Reserve System. Bayesian Estimation of DSGE

More information

Bayesian Regression Linear and Logistic Regression

Bayesian Regression Linear and Logistic Regression When we want more than point estimates Bayesian Regression Linear and Logistic Regression Nicole Beckage Ordinary Least Squares Regression and Lasso Regression return only point estimates But what if we

More information

σ(a) = a N (x; 0, 1 2 ) dx. σ(a) = Φ(a) =

σ(a) = a N (x; 0, 1 2 ) dx. σ(a) = Φ(a) = Until now we have always worked with likelihoods and prior distributions that were conjugate to each other, allowing the computation of the posterior distribution to be done in closed form. Unfortunately,

More information

Bayesian Learning (II)

Bayesian Learning (II) Universität Potsdam Institut für Informatik Lehrstuhl Maschinelles Lernen Bayesian Learning (II) Niels Landwehr Overview Probabilities, expected values, variance Basic concepts of Bayesian learning MAP

More information

Density Estimation. Seungjin Choi

Density Estimation. Seungjin Choi Density Estimation Seungjin Choi Department of Computer Science and Engineering Pohang University of Science and Technology 77 Cheongam-ro, Nam-gu, Pohang 37673, Korea seungjin@postech.ac.kr http://mlg.postech.ac.kr/

More information

GAUSSIAN PROCESS REGRESSION

GAUSSIAN PROCESS REGRESSION GAUSSIAN PROCESS REGRESSION CSE 515T Spring 2015 1. BACKGROUND The kernel trick again... The Kernel Trick Consider again the linear regression model: y(x) = φ(x) w + ε, with prior p(w) = N (w; 0, Σ). The

More information

David Giles Bayesian Econometrics

David Giles Bayesian Econometrics David Giles Bayesian Econometrics 1. General Background 2. Constructing Prior Distributions 3. Properties of Bayes Estimators and Tests 4. Bayesian Analysis of the Multiple Regression Model 5. Bayesian

More information

Bayesian Computations for DSGE Models

Bayesian Computations for DSGE Models Bayesian Computations for DSGE Models Frank Schorfheide University of Pennsylvania, PIER, CEPR, and NBER October 23, 2017 This Lecture is Based on Bayesian Estimation of DSGE Models Edward P. Herbst &

More information

Principles of Bayesian Inference

Principles of Bayesian Inference Principles of Bayesian Inference Sudipto Banerjee and Andrew O. Finley 2 Biostatistics, School of Public Health, University of Minnesota, Minneapolis, Minnesota, U.S.A. 2 Department of Forestry & Department

More information

Lecture 2: From Linear Regression to Kalman Filter and Beyond

Lecture 2: From Linear Regression to Kalman Filter and Beyond Lecture 2: From Linear Regression to Kalman Filter and Beyond January 18, 2017 Contents 1 Batch and Recursive Estimation 2 Towards Bayesian Filtering 3 Kalman Filter and Bayesian Filtering and Smoothing

More information

Bayesian Learning. HT2015: SC4 Statistical Data Mining and Machine Learning. Maximum Likelihood Principle. The Bayesian Learning Framework

Bayesian Learning. HT2015: SC4 Statistical Data Mining and Machine Learning. Maximum Likelihood Principle. The Bayesian Learning Framework HT5: SC4 Statistical Data Mining and Machine Learning Dino Sejdinovic Department of Statistics Oxford http://www.stats.ox.ac.uk/~sejdinov/sdmml.html Maximum Likelihood Principle A generative model for

More information

Hierarchical Modeling for Spatial Data

Hierarchical Modeling for Spatial Data Bayesian Spatial Modelling Spatial model specifications: P(y X, θ). Prior specifications: P(θ). Posterior inference of model parameters: P(θ y). Predictions at new locations: P(y 0 y). Model comparisons.

More information

Parametric Techniques Lecture 3

Parametric Techniques Lecture 3 Parametric Techniques Lecture 3 Jason Corso SUNY at Buffalo 22 January 2009 J. Corso (SUNY at Buffalo) Parametric Techniques Lecture 3 22 January 2009 1 / 39 Introduction In Lecture 2, we learned how to

More information

10. Exchangeability and hierarchical models Objective. Recommended reading

10. Exchangeability and hierarchical models Objective. Recommended reading 10. Exchangeability and hierarchical models Objective Introduce exchangeability and its relation to Bayesian hierarchical models. Show how to fit such models using fully and empirical Bayesian methods.

More information

Expectation Propagation for Approximate Bayesian Inference

Expectation Propagation for Approximate Bayesian Inference Expectation Propagation for Approximate Bayesian Inference José Miguel Hernández Lobato Universidad Autónoma de Madrid, Computer Science Department February 5, 2007 1/ 24 Bayesian Inference Inference Given

More information

Principles of Bayesian Inference

Principles of Bayesian Inference Principles of Bayesian Inference Sudipto Banerjee 1 and Andrew O. Finley 2 1 Biostatistics, School of Public Health, University of Minnesota, Minneapolis, Minnesota, U.S.A. 2 Department of Forestry & Department

More information

Prelim Examination. Friday August 11, Time limit: 150 minutes

Prelim Examination. Friday August 11, Time limit: 150 minutes University of Pennsylvania Economics 706, Fall 2017 Prelim Prelim Examination Friday August 11, 2017. Time limit: 150 minutes Instructions: (i) The total number of points is 80, the number of points for

More information

Lecture 2: From Linear Regression to Kalman Filter and Beyond

Lecture 2: From Linear Regression to Kalman Filter and Beyond Lecture 2: From Linear Regression to Kalman Filter and Beyond Department of Biomedical Engineering and Computational Science Aalto University January 26, 2012 Contents 1 Batch and Recursive Estimation

More information

Bayesian Decision and Bayesian Learning

Bayesian Decision and Bayesian Learning Bayesian Decision and Bayesian Learning Ying Wu Electrical Engineering and Computer Science Northwestern University Evanston, IL 60208 http://www.eecs.northwestern.edu/~yingwu 1 / 30 Bayes Rule p(x ω i

More information

Choosing among models

Choosing among models Eco 515 Fall 2014 Chris Sims Choosing among models September 18, 2014 c 2014 by Christopher A. Sims. This document is licensed under the Creative Commons Attribution-NonCommercial-ShareAlike 3.0 Unported

More information

Lecture : Probabilistic Machine Learning

Lecture : Probabilistic Machine Learning Lecture : Probabilistic Machine Learning Riashat Islam Reasoning and Learning Lab McGill University September 11, 2018 ML : Many Methods with Many Links Modelling Views of Machine Learning Machine Learning

More information

7. Estimation and hypothesis testing. Objective. Recommended reading

7. Estimation and hypothesis testing. Objective. Recommended reading 7. Estimation and hypothesis testing Objective In this chapter, we show how the election of estimators can be represented as a decision problem. Secondly, we consider the problem of hypothesis testing

More information

Bayesian Machine Learning

Bayesian Machine Learning Bayesian Machine Learning Andrew Gordon Wilson ORIE 6741 Lecture 2: Bayesian Basics https://people.orie.cornell.edu/andrew/orie6741 Cornell University August 25, 2016 1 / 17 Canonical Machine Learning

More information

Introduction to Bayesian Computation

Introduction to Bayesian Computation Introduction to Bayesian Computation Dr. Jarad Niemi STAT 544 - Iowa State University March 20, 2018 Jarad Niemi (STAT544@ISU) Introduction to Bayesian Computation March 20, 2018 1 / 30 Bayesian computation

More information

STA 414/2104, Spring 2014, Practice Problem Set #1

STA 414/2104, Spring 2014, Practice Problem Set #1 STA 44/4, Spring 4, Practice Problem Set # Note: these problems are not for credit, and not to be handed in Question : Consider a classification problem in which there are two real-valued inputs, and,

More information

BAYESIAN METHODS FOR VARIABLE SELECTION WITH APPLICATIONS TO HIGH-DIMENSIONAL DATA

BAYESIAN METHODS FOR VARIABLE SELECTION WITH APPLICATIONS TO HIGH-DIMENSIONAL DATA BAYESIAN METHODS FOR VARIABLE SELECTION WITH APPLICATIONS TO HIGH-DIMENSIONAL DATA Intro: Course Outline and Brief Intro to Marina Vannucci Rice University, USA PASI-CIMAT 04/28-30/2010 Marina Vannucci

More information

Bayesian Deep Learning

Bayesian Deep Learning Bayesian Deep Learning Mohammad Emtiyaz Khan AIP (RIKEN), Tokyo http://emtiyaz.github.io emtiyaz.khan@riken.jp June 06, 2018 Mohammad Emtiyaz Khan 2018 1 What will you learn? Why is Bayesian inference

More information

COS513 LECTURE 8 STATISTICAL CONCEPTS

COS513 LECTURE 8 STATISTICAL CONCEPTS COS513 LECTURE 8 STATISTICAL CONCEPTS NIKOLAI SLAVOV AND ANKUR PARIKH 1. MAKING MEANINGFUL STATEMENTS FROM JOINT PROBABILITY DISTRIBUTIONS. A graphical model (GM) represents a family of probability distributions

More information

Bayesian Model Comparison:

Bayesian Model Comparison: Bayesian Model Comparison: Modeling Petrobrás log-returns Hedibert Freitas Lopes February 2014 Log price: y t = log p t Time span: 12/29/2000-12/31/2013 (n = 3268 days) LOG PRICE 1 2 3 4 0 500 1000 1500

More information

Sequential Monte Carlo Methods

Sequential Monte Carlo Methods University of Pennsylvania Bradley Visitor Lectures October 23, 2017 Introduction Unfortunately, standard MCMC can be inaccurate, especially in medium and large-scale DSGE models: disentangling importance

More information

Parametric Techniques

Parametric Techniques Parametric Techniques Jason J. Corso SUNY at Buffalo J. Corso (SUNY at Buffalo) Parametric Techniques 1 / 39 Introduction When covering Bayesian Decision Theory, we assumed the full probabilistic structure

More information

CPSC 540: Machine Learning

CPSC 540: Machine Learning CPSC 540: Machine Learning Empirical Bayes, Hierarchical Bayes Mark Schmidt University of British Columbia Winter 2017 Admin Assignment 5: Due April 10. Project description on Piazza. Final details coming

More information

Econ 2148, fall 2017 Gaussian process priors, reproducing kernel Hilbert spaces, and Splines

Econ 2148, fall 2017 Gaussian process priors, reproducing kernel Hilbert spaces, and Splines Econ 2148, fall 2017 Gaussian process priors, reproducing kernel Hilbert spaces, and Splines Maximilian Kasy Department of Economics, Harvard University 1 / 37 Agenda 6 equivalent representations of the

More information

STA414/2104 Statistical Methods for Machine Learning II

STA414/2104 Statistical Methods for Machine Learning II STA414/2104 Statistical Methods for Machine Learning II Murat A. Erdogdu & David Duvenaud Department of Computer Science Department of Statistical Sciences Lecture 3 Slide credits: Russ Salakhutdinov Announcements

More information

Introduction to Systems Analysis and Decision Making Prepared by: Jakub Tomczak

Introduction to Systems Analysis and Decision Making Prepared by: Jakub Tomczak Introduction to Systems Analysis and Decision Making Prepared by: Jakub Tomczak 1 Introduction. Random variables During the course we are interested in reasoning about considered phenomenon. In other words,

More information

Principles of Bayesian Inference

Principles of Bayesian Inference Principles of Bayesian Inference Sudipto Banerjee University of Minnesota July 20th, 2008 1 Bayesian Principles Classical statistics: model parameters are fixed and unknown. A Bayesian thinks of parameters

More information

Principles of Bayesian Inference

Principles of Bayesian Inference Principles of Bayesian Inference Sudipto Banerjee 1 and Andrew O. Finley 2 1 Biostatistics, School of Public Health, University of Minnesota, Minneapolis, Minnesota, U.S.A. 2 Department of Forestry & Department

More information

GWAS IV: Bayesian linear (variance component) models

GWAS IV: Bayesian linear (variance component) models GWAS IV: Bayesian linear (variance component) models Dr. Oliver Stegle Christoh Lippert Prof. Dr. Karsten Borgwardt Max-Planck-Institutes Tübingen, Germany Tübingen Summer 2011 Oliver Stegle GWAS IV: Bayesian

More information

Bayesian Inference and MCMC

Bayesian Inference and MCMC Bayesian Inference and MCMC Aryan Arbabi Partly based on MCMC slides from CSC412 Fall 2018 1 / 18 Bayesian Inference - Motivation Consider we have a data set D = {x 1,..., x n }. E.g each x i can be the

More information

Hierarchical Models & Bayesian Model Selection

Hierarchical Models & Bayesian Model Selection Hierarchical Models & Bayesian Model Selection Geoffrey Roeder Departments of Computer Science and Statistics University of British Columbia Jan. 20, 2016 Contact information Please report any typos or

More information

Sequential Monte Carlo Methods (for DSGE Models)

Sequential Monte Carlo Methods (for DSGE Models) Sequential Monte Carlo Methods (for DSGE Models) Frank Schorfheide University of Pennsylvania, PIER, CEPR, and NBER October 23, 2017 Some References Solution and Estimation of DSGE Models, with J. Fernandez-Villaverde

More information

Introduction to Machine Learning

Introduction to Machine Learning Introduction to Machine Learning Bayesian Classification Varun Chandola Computer Science & Engineering State University of New York at Buffalo Buffalo, NY, USA chandola@buffalo.edu Chandola@UB CSE 474/574

More information

Lecture 1: Bayesian Framework Basics

Lecture 1: Bayesian Framework Basics Lecture 1: Bayesian Framework Basics Melih Kandemir melih.kandemir@iwr.uni-heidelberg.de April 21, 2014 What is this course about? Building Bayesian machine learning models Performing the inference of

More information

Parameter estimation and forecasting. Cristiano Porciani AIfA, Uni-Bonn

Parameter estimation and forecasting. Cristiano Porciani AIfA, Uni-Bonn Parameter estimation and forecasting Cristiano Porciani AIfA, Uni-Bonn Questions? C. Porciani Estimation & forecasting 2 Temperature fluctuations Variance at multipole l (angle ~180o/l) C. Porciani Estimation

More information

A Very Brief Summary of Bayesian Inference, and Examples

A Very Brief Summary of Bayesian Inference, and Examples A Very Brief Summary of Bayesian Inference, and Examples Trinity Term 009 Prof Gesine Reinert Our starting point are data x = x 1, x,, x n, which we view as realisations of random variables X 1, X,, X

More information

Comment about AR spectral estimation Usually an estimate is produced by computing the AR theoretical spectrum at (ˆφ, ˆσ 2 ). With our Monte Carlo

Comment about AR spectral estimation Usually an estimate is produced by computing the AR theoretical spectrum at (ˆφ, ˆσ 2 ). With our Monte Carlo Comment aout AR spectral estimation Usually an estimate is produced y computing the AR theoretical spectrum at (ˆφ, ˆσ 2 ). With our Monte Carlo simulation approach, for every draw (φ,σ 2 ), we can compute

More information

Loss Function Estimation of Forecasting Models A Bayesian Perspective

Loss Function Estimation of Forecasting Models A Bayesian Perspective Loss Function Estimation of Forecasting Models A Bayesian Perspective Frank Schorfheide University of Pennsylvania, Department of Economics 3718 Locust Walk, Philadelphia, PA 19104-6297 schorf@ssc.upenn.edu

More information

Hypothesis Testing. Econ 690. Purdue University. Justin L. Tobias (Purdue) Testing 1 / 33

Hypothesis Testing. Econ 690. Purdue University. Justin L. Tobias (Purdue) Testing 1 / 33 Hypothesis Testing Econ 690 Purdue University Justin L. Tobias (Purdue) Testing 1 / 33 Outline 1 Basic Testing Framework 2 Testing with HPD intervals 3 Example 4 Savage Dickey Density Ratio 5 Bartlett

More information

David Giles Bayesian Econometrics

David Giles Bayesian Econometrics 9. Model Selection - Theory David Giles Bayesian Econometrics One nice feature of the Bayesian analysis is that we can apply it to drawing inferences about entire models, not just parameters. Can't do

More information

Time Series and Dynamic Models

Time Series and Dynamic Models Time Series and Dynamic Models Section 1 Intro to Bayesian Inference Carlos M. Carvalho The University of Texas at Austin 1 Outline 1 1. Foundations of Bayesian Statistics 2. Bayesian Estimation 3. The

More information

Introduction into Bayesian statistics

Introduction into Bayesian statistics Introduction into Bayesian statistics Maxim Kochurov EF MSU November 15, 2016 Maxim Kochurov Introduction into Bayesian statistics EF MSU 1 / 7 Content 1 Framework Notations 2 Difference Bayesians vs Frequentists

More information

Introduction to Probabilistic Machine Learning

Introduction to Probabilistic Machine Learning Introduction to Probabilistic Machine Learning Piyush Rai Dept. of CSE, IIT Kanpur (Mini-course 1) Nov 03, 2015 Piyush Rai (IIT Kanpur) Introduction to Probabilistic Machine Learning 1 Machine Learning

More information

Bayesian RL Seminar. Chris Mansley September 9, 2008

Bayesian RL Seminar. Chris Mansley September 9, 2008 Bayesian RL Seminar Chris Mansley September 9, 2008 Bayes Basic Probability One of the basic principles of probability theory, the chain rule, will allow us to derive most of the background material in

More information

Lecture 7 and 8: Markov Chain Monte Carlo

Lecture 7 and 8: Markov Chain Monte Carlo Lecture 7 and 8: Markov Chain Monte Carlo 4F13: Machine Learning Zoubin Ghahramani and Carl Edward Rasmussen Department of Engineering University of Cambridge http://mlg.eng.cam.ac.uk/teaching/4f13/ Ghahramani

More information

Empirical Risk Minimization is an incomplete inductive principle Thomas P. Minka

Empirical Risk Minimization is an incomplete inductive principle Thomas P. Minka Empirical Risk Minimization is an incomplete inductive principle Thomas P. Minka February 20, 2001 Abstract Empirical Risk Minimization (ERM) only utilizes the loss function defined for the task and is

More information

Point, Interval, and Density Forecast Evaluation of Linear versus Nonlinear DSGE Models

Point, Interval, and Density Forecast Evaluation of Linear versus Nonlinear DSGE Models Point, Interval, and Density Forecast Evaluation of Linear versus Nonlinear DSGE Models Francis X. Diebold Frank Schorfheide Minchul Shin University of Pennsylvania May 4, 2014 1 / 33 Motivation The use

More information

Sequential Monte Carlo Methods (for DSGE Models)

Sequential Monte Carlo Methods (for DSGE Models) Sequential Monte Carlo Methods (for DSGE Models) Frank Schorfheide University of Pennsylvania, PIER, CEPR, and NBER October 23, 2017 Some References These lectures use material from our joint work: Tempered

More information

Bayesian model selection: methodology, computation and applications

Bayesian model selection: methodology, computation and applications Bayesian model selection: methodology, computation and applications David Nott Department of Statistics and Applied Probability National University of Singapore Statistical Genomics Summer School Program

More information

A Bayesian Treatment of Linear Gaussian Regression

A Bayesian Treatment of Linear Gaussian Regression A Bayesian Treatment of Linear Gaussian Regression Frank Wood December 3, 2009 Bayesian Approach to Classical Linear Regression In classical linear regression we have the following model y β, σ 2, X N(Xβ,

More information

DSGE Model Forecasting

DSGE Model Forecasting University of Pennsylvania EABCN Training School May 1, 216 Introduction The use of DSGE models at central banks has triggered a strong interest in their forecast performance. The subsequent material draws

More information

Decision theory. 1 We may also consider randomized decision rules, where δ maps observed data D to a probability distribution over

Decision theory. 1 We may also consider randomized decision rules, where δ maps observed data D to a probability distribution over Point estimation Suppose we are interested in the value of a parameter θ, for example the unknown bias of a coin. We have already seen how one may use the Bayesian method to reason about θ; namely, we

More information

One-parameter models

One-parameter models One-parameter models Patrick Breheny January 22 Patrick Breheny BST 701: Bayesian Modeling in Biostatistics 1/17 Introduction Binomial data is not the only example in which Bayesian solutions can be worked

More information

Nested Sampling. Brendon J. Brewer. brewer/ Department of Statistics The University of Auckland

Nested Sampling. Brendon J. Brewer.   brewer/ Department of Statistics The University of Auckland Department of Statistics The University of Auckland https://www.stat.auckland.ac.nz/ brewer/ is a Monte Carlo method (not necessarily MCMC) that was introduced by John Skilling in 2004. It is very popular

More information

Practical Bayesian Optimization of Machine Learning. Learning Algorithms

Practical Bayesian Optimization of Machine Learning. Learning Algorithms Practical Bayesian Optimization of Machine Learning Algorithms CS 294 University of California, Berkeley Tuesday, April 20, 2016 Motivation Machine Learning Algorithms (MLA s) have hyperparameters that

More information

Stable Limit Laws for Marginal Probabilities from MCMC Streams: Acceleration of Convergence

Stable Limit Laws for Marginal Probabilities from MCMC Streams: Acceleration of Convergence Stable Limit Laws for Marginal Probabilities from MCMC Streams: Acceleration of Convergence Robert L. Wolpert Institute of Statistics and Decision Sciences Duke University, Durham NC 778-5 - Revised April,

More information

PMR Learning as Inference

PMR Learning as Inference Outline PMR Learning as Inference Probabilistic Modelling and Reasoning Amos Storkey Modelling 2 The Exponential Family 3 Bayesian Sets School of Informatics, University of Edinburgh Amos Storkey PMR Learning

More information

Linear regression example Simple linear regression: f(x) = ϕ(x)t w w ~ N(0, ) The mean and covariance are given by E[f(x)] = ϕ(x)e[w] = 0.

Linear regression example Simple linear regression: f(x) = ϕ(x)t w w ~ N(0, ) The mean and covariance are given by E[f(x)] = ϕ(x)e[w] = 0. Gaussian Processes Gaussian Process Stochastic process: basically, a set of random variables. may be infinite. usually related in some way. Gaussian process: each variable has a Gaussian distribution every

More information

INTRODUCTION TO BAYESIAN ANALYSIS

INTRODUCTION TO BAYESIAN ANALYSIS INTRODUCTION TO BAYESIAN ANALYSIS Arto Luoma University of Tampere, Finland Autumn 2014 Introduction to Bayesian analysis, autumn 2013 University of Tampere 1 / 130 Who was Thomas Bayes? Thomas Bayes (1701-1761)

More information

Introduction to Machine Learning

Introduction to Machine Learning Outline Introduction to Machine Learning Bayesian Classification Varun Chandola March 8, 017 1. {circular,large,light,smooth,thick}, malignant. {circular,large,light,irregular,thick}, malignant 3. {oval,large,dark,smooth,thin},

More information

Bayesian Dropout. Tue Herlau, Morten Morup and Mikkel N. Schmidt. Feb 20, Discussed by: Yizhe Zhang

Bayesian Dropout. Tue Herlau, Morten Morup and Mikkel N. Schmidt. Feb 20, Discussed by: Yizhe Zhang Bayesian Dropout Tue Herlau, Morten Morup and Mikkel N. Schmidt Discussed by: Yizhe Zhang Feb 20, 2016 Outline 1 Introduction 2 Model 3 Inference 4 Experiments Dropout Training stage: A unit is present

More information

g-priors for Linear Regression

g-priors for Linear Regression Stat60: Bayesian Modeling and Inference Lecture Date: March 15, 010 g-priors for Linear Regression Lecturer: Michael I. Jordan Scribe: Andrew H. Chan 1 Linear regression and g-priors In the last lecture,

More information

Introduction to Bayesian Methods. Introduction to Bayesian Methods p.1/??

Introduction to Bayesian Methods. Introduction to Bayesian Methods p.1/?? to Bayesian Methods Introduction to Bayesian Methods p.1/?? We develop the Bayesian paradigm for parametric inference. To this end, suppose we conduct (or wish to design) a study, in which the parameter

More information

Introduction: MLE, MAP, Bayesian reasoning (28/8/13)

Introduction: MLE, MAP, Bayesian reasoning (28/8/13) STA561: Probabilistic machine learning Introduction: MLE, MAP, Bayesian reasoning (28/8/13) Lecturer: Barbara Engelhardt Scribes: K. Ulrich, J. Subramanian, N. Raval, J. O Hollaren 1 Classifiers In this

More information

Short Questions (Do two out of three) 15 points each

Short Questions (Do two out of three) 15 points each Econometrics Short Questions Do two out of three) 5 points each ) Let y = Xβ + u and Z be a set of instruments for X When we estimate β with OLS we project y onto the space spanned by X along a path orthogonal

More information

Intelligent Systems I

Intelligent Systems I 1, Intelligent Systems I 12 SAMPLING METHODS THE LAST THING YOU SHOULD EVER TRY Philipp Hennig & Stefan Harmeling Max Planck Institute for Intelligent Systems 23. January 2014 Dptmt. of Empirical Inference

More information

Riemann Manifold Methods in Bayesian Statistics

Riemann Manifold Methods in Bayesian Statistics Ricardo Ehlers ehlers@icmc.usp.br Applied Maths and Stats University of São Paulo, Brazil Working Group in Statistical Learning University College Dublin September 2015 Bayesian inference is based on Bayes

More information

INTRODUCTION TO BAYESIAN INFERENCE PART 2 CHRIS BISHOP

INTRODUCTION TO BAYESIAN INFERENCE PART 2 CHRIS BISHOP INTRODUCTION TO BAYESIAN INFERENCE PART 2 CHRIS BISHOP Personal Healthcare Revolution Electronic health records (CFH) Personal genomics (DeCode, Navigenics, 23andMe) X-prize: first $10k human genome technology

More information

7. Estimation and hypothesis testing. Objective. Recommended reading

7. Estimation and hypothesis testing. Objective. Recommended reading 7. Estimation and hypothesis testing Objective In this chapter, we show how the election of estimators can be represented as a decision problem. Secondly, we consider the problem of hypothesis testing

More information

Bayesian Gaussian / Linear Models. Read Sections and 3.3 in the text by Bishop

Bayesian Gaussian / Linear Models. Read Sections and 3.3 in the text by Bishop Bayesian Gaussian / Linear Models Read Sections 2.3.3 and 3.3 in the text by Bishop Multivariate Gaussian Model with Multivariate Gaussian Prior Suppose we model the observed vector b as having a multivariate

More information

Gaussian processes. Chuong B. Do (updated by Honglak Lee) November 22, 2008

Gaussian processes. Chuong B. Do (updated by Honglak Lee) November 22, 2008 Gaussian processes Chuong B Do (updated by Honglak Lee) November 22, 2008 Many of the classical machine learning algorithms that we talked about during the first half of this course fit the following pattern:

More information

Approximate Bayesian computation for spatial extremes via open-faced sandwich adjustment

Approximate Bayesian computation for spatial extremes via open-faced sandwich adjustment Approximate Bayesian computation for spatial extremes via open-faced sandwich adjustment Ben Shaby SAMSI August 3, 2010 Ben Shaby (SAMSI) OFS adjustment August 3, 2010 1 / 29 Outline 1 Introduction 2 Spatial

More information

Harrison B. Prosper. Bari Lectures

Harrison B. Prosper. Bari Lectures Harrison B. Prosper Florida State University Bari Lectures 30, 31 May, 1 June 2016 Lectures on Multivariate Methods Harrison B. Prosper Bari, 2016 1 h Lecture 1 h Introduction h Classification h Grid Searches

More information

Markov Chain Monte Carlo

Markov Chain Monte Carlo Department of Statistics The University of Auckland https://www.stat.auckland.ac.nz/~brewer/ Emphasis I will try to emphasise the underlying ideas of the methods. I will not be teaching specific software

More information

Sparse Bayesian Logistic Regression with Hierarchical Prior and Variational Inference

Sparse Bayesian Logistic Regression with Hierarchical Prior and Variational Inference Sparse Bayesian Logistic Regression with Hierarchical Prior and Variational Inference Shunsuke Horii Waseda University s.horii@aoni.waseda.jp Abstract In this paper, we present a hierarchical model which

More information

Sequential Monte Carlo Methods

Sequential Monte Carlo Methods University of Pennsylvania EABCN Training School May 10, 2016 Introduction Unfortunately, standard MCMC can be inaccurate, especially in medium and large-scale DSGE models: disentangling importance of

More information

Penalized Loss functions for Bayesian Model Choice

Penalized Loss functions for Bayesian Model Choice Penalized Loss functions for Bayesian Model Choice Martyn International Agency for Research on Cancer Lyon, France 13 November 2009 The pure approach For a Bayesian purist, all uncertainty is represented

More information

Predictive Distributions

Predictive Distributions Predictive Distributions October 6, 2010 Hoff Chapter 4 5 October 5, 2010 Prior Predictive Distribution Before we observe the data, what do we expect the distribution of observations to be? p(y i ) = p(y

More information

Regression. Machine Learning and Pattern Recognition. Chris Williams. School of Informatics, University of Edinburgh.

Regression. Machine Learning and Pattern Recognition. Chris Williams. School of Informatics, University of Edinburgh. Regression Machine Learning and Pattern Recognition Chris Williams School of Informatics, University of Edinburgh September 24 (All of the slides in this course have been adapted from previous versions

More information

Learning Bayesian network : Given structure and completely observed data

Learning Bayesian network : Given structure and completely observed data Learning Bayesian network : Given structure and completely observed data Probabilistic Graphical Models Sharif University of Technology Spring 2017 Soleymani Learning problem Target: true distribution

More information

BAYESIAN ESTIMATION OF UNKNOWN PARAMETERS OVER NETWORKS

BAYESIAN ESTIMATION OF UNKNOWN PARAMETERS OVER NETWORKS BAYESIAN ESTIMATION OF UNKNOWN PARAMETERS OVER NETWORKS Petar M. Djurić Dept. of Electrical & Computer Engineering Stony Brook University Stony Brook, NY 11794, USA e-mail: petar.djuric@stonybrook.edu

More information

Bayesian inference. Rasmus Waagepetersen Department of Mathematics Aalborg University Denmark. April 10, 2017

Bayesian inference. Rasmus Waagepetersen Department of Mathematics Aalborg University Denmark. April 10, 2017 Bayesian inference Rasmus Waagepetersen Department of Mathematics Aalborg University Denmark April 10, 2017 1 / 22 Outline for today A genetic example Bayes theorem Examples Priors Posterior summaries

More information

Part 4: Multi-parameter and normal models

Part 4: Multi-parameter and normal models Part 4: Multi-parameter and normal models 1 The normal model Perhaps the most useful (or utilized) probability model for data analysis is the normal distribution There are several reasons for this, e.g.,

More information

Naïve Bayes classification

Naïve Bayes classification Naïve Bayes classification 1 Probability theory Random variable: a variable whose possible values are numerical outcomes of a random phenomenon. Examples: A person s height, the outcome of a coin toss

More information

General Bayesian Inference I

General Bayesian Inference I General Bayesian Inference I Outline: Basic concepts, One-parameter models, Noninformative priors. Reading: Chapters 10 and 11 in Kay-I. (Occasional) Simplified Notation. When there is no potential for

More information

Hierarchical models. Dr. Jarad Niemi. August 31, Iowa State University. Jarad Niemi (Iowa State) Hierarchical models August 31, / 31

Hierarchical models. Dr. Jarad Niemi. August 31, Iowa State University. Jarad Niemi (Iowa State) Hierarchical models August 31, / 31 Hierarchical models Dr. Jarad Niemi Iowa State University August 31, 2017 Jarad Niemi (Iowa State) Hierarchical models August 31, 2017 1 / 31 Normal hierarchical model Let Y ig N(θ g, σ 2 ) for i = 1,...,

More information

Bayesian Methods: Naïve Bayes

Bayesian Methods: Naïve Bayes Bayesian Methods: aïve Bayes icholas Ruozzi University of Texas at Dallas based on the slides of Vibhav Gogate Last Time Parameter learning Learning the parameter of a simple coin flipping model Prior

More information

Bayesian Analysis (Optional)

Bayesian Analysis (Optional) Bayesian Analysis (Optional) 1 2 Big Picture There are two ways to conduct statistical inference 1. Classical method (frequentist), which postulates (a) Probability refers to limiting relative frequencies

More information

Midterm Review CS 7301: Advanced Machine Learning. Vibhav Gogate The University of Texas at Dallas

Midterm Review CS 7301: Advanced Machine Learning. Vibhav Gogate The University of Texas at Dallas Midterm Review CS 7301: Advanced Machine Learning Vibhav Gogate The University of Texas at Dallas Supervised Learning Issues in supervised learning What makes learning hard Point Estimation: MLE vs Bayesian

More information

COM336: Neural Computing

COM336: Neural Computing COM336: Neural Computing http://www.dcs.shef.ac.uk/ sjr/com336/ Lecture 2: Density Estimation Steve Renals Department of Computer Science University of Sheffield Sheffield S1 4DP UK email: s.renals@dcs.shef.ac.uk

More information

Probabilistic Reasoning in Deep Learning

Probabilistic Reasoning in Deep Learning Probabilistic Reasoning in Deep Learning Dr Konstantina Palla, PhD palla@stats.ox.ac.uk September 2017 Deep Learning Indaba, Johannesburgh Konstantina Palla 1 / 39 OVERVIEW OF THE TALK Basics of Bayesian

More information