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In this chapter, we describe how to jointly model continuous quantities, by representing them as multiple continuous random variables within the same probability space. We define the joint cumulative distribution function and the joint probability density function and explain how to estimate the latter from data using a multivariate generalization of kernel density estimation. Next, we introduce marginal and conditional distributions of continuous variables and also discuss independence and conditional independence. Throughout, we model real-world temperature data as a running example. Then, we explain how to jointly simulate multiple random variables, in order to correctly account for the dependence between them. Finally, we define Gaussian random vectors which are the most popular multidimensional parametric model for continuous data, and apply them to model anthropometric data.
Le Liang, Southeast University, Nanjing,Shi Jin, Southeast University, Nanjing,Hao Ye, University of California, Santa Cruz,Geoffrey Ye Li, Imperial College of Science, Technology and Medicine, London
This chapter focuses on correlation, a key metric in data science that quantifies to what extent two quantities are linearly related. We begin by defining correlation between normalized and centered random variables. Then, we generalize the definition to all random variables and introduce the concept of covariance, which measures the average joint variation of two random variables. Next, we explain how to estimate correlation from data and analyze the correlation between the height of NBA players and different basketball stats.In addition, we study the connection between correlation and simple linear regression. We then discuss the differences between uncorrelation and independence. In order to gain better intuition about the properties of correlation, we provide a geometric interpretation of correlation, where the covariance is an inner product between random variables. Finally, we show that correlation does not imply causation, as illustrated by the spurious correlation between temperature and unemployment in Spain.
Le Liang, Southeast University, Nanjing,Shi Jin, Southeast University, Nanjing,Hao Ye, University of California, Santa Cruz,Geoffrey Ye Li, Imperial College of Science, Technology and Medicine, London
This chapter presents hypothesis testing which is used to evaluate whether the available data provide sufficient evidence to support a certain hypothesis. The main idea is to play devil's advocate and assume a null hypothesis, which contradicts our hypothesis of interest. We explain how to use parametric modeling to implement this idea, and define the p-value. We prove that thresholding the p-value controls the probability of false positives. In addition, we define the power of a test, which quantifies the test's ability to identify positive findings. Next, we show how to perform hypothesis testing without a parametric model, focusing on the permutation test. Then, we discuss multiple testing, a setting where many tests are performed simultaneously. Finally, we provide three reasons why hypothesis testing should not be used as the only stamp of approval for scientific discoveries. First, hypothesis testing does not necessarily identify causal effects; it is complementary to causal inference. Second, small p-values do not imply practical significance. Third, relying on p-values to validate findings produces a strong incentive to cherry-pick results.
In time-dependent systems, autoregressive models are frequently employed to investigate the interactions between variables of interest in fields such as climate science, macroeconomics, and neuroscience. Typically, these variables are aggregated from smaller-scale variables into large-scale variables, for instance, representing modes of climate variability in climate science. A key aspect of these models is estimating the long-term effects of external perturbations, once the system stabilizes. Our primary contribution is an explicit formula for quantifying these long-term effects on small-scale variables, which is directly estimable from the model’s linear coefficients and aggregation weights. This improves traditional autoregressive models by providing a localized understanding of the system behavior. We conduct a series of numerical experiments to evaluate the performance of various methods to estimate perturbation effects from data. Our second contribution is the derivation of the asymptotic properties of these estimators under suitable assumptions. These asymptotic properties can be leveraged for uncertainty quantification. In a numerical experiment, we compare the uncertainty ranges of the proposed asymptotic-based approach with four bootstrap-based methods. Finally, we apply our methods to investigate the effects of economic activities on air pollution in Northern Italy, demonstrating their ability to reveal local effects. Our novel approach provides a comprehensive framework for analyzing the impacts of perturbations on both large- and small-scale variables, thereby enhancing our understanding of complex systems. Our research has implications for various disciplines where the study of perturbation effects is crucial for understanding and predicting systems’ behavior.
This chapter explains how to estimate population parameters from data. We introduce random sampling, an approach that yields accurate estimates from limited data. We then define the bias and the standard error, which quantify the average error of an estimator and how much it varies, respectively. In addition, we derive deviation bounds and use them to prove the law of large numbers, which states that averaging many independent samples from a distribution yields an accurate estimate of its mean. An important consequence is that random sampling provides a precise estimate of means and proportions. However, we caution that this is not necessarily the case, if the data contain extreme values. Next, we discuss the central limit theorem (CLT), according to which averages of independent quantities tend to be Gaussian. We again provide a cautionary tale, warning that this does not hold in the absence of independence. Then, we explain how to use the CLT to build confidence intervals which quantify the uncertainty of estimates obtained from finite data. Finally, we introduce the bootstrap, a popular computational technique to estimate standard errors and build confidence intervals.
Le Liang, Southeast University, Nanjing,Shi Jin, Southeast University, Nanjing,Hao Ye, University of California, Santa Cruz,Geoffrey Ye Li, Imperial College of Science, Technology and Medicine, London
Le Liang, Southeast University, Nanjing,Shi Jin, Southeast University, Nanjing,Hao Ye, University of California, Santa Cruz,Geoffrey Ye Li, Imperial College of Science, Technology and Medicine, London
This chapter covers regression and classification, where the goal is to estimate a quantity of interest (the response) from observed features. In regression, the response is a numerical variable. In classification, it belongs to a finite set of predetermined classes. We begin with a comprehensive description of linear regression and discuss how to leverage it to perform causal inference. Then, we explain under what conditions linear models tend to overfit or to generalize robustly to held-out data. Motivated by the threat of overfitting, we introduce regularization and ridge regression, and discuss sparse regression, where the goal is to fit a linear model that only depends on a small subset of the available features. Then, we introduce two popular linear models for binary and multiclass classification: Logistic and softmax regression. At this point, we turn our attention to nonlinear models. First, we present regression and classification trees and explain how to combine them via bagging, random forests, and boosting. Second, we explain how to train neural networks to perform regression and classification. Finally, we discuss how to evaluate classification models.
Le Liang, Southeast University, Nanjing,Shi Jin, Southeast University, Nanjing,Hao Ye, University of California, Santa Cruz,Geoffrey Ye Li, Imperial College of Science, Technology and Medicine, London
This chapter describes how to model multiple discrete quantities as discrete random variables within the same probability space and manipulate them using their joint pmf. We explain how to estimate the joint pmf from data, and use it to model precipitation in Oregon. Then, we introduce marginal distributions, which describe the individual behavior of each variable in a model, and conditional distributions, which describe the behavior of a variable when other variables are fixed. Next, we generalize the concepts of independence and conditional independence to random variables. In addition, we discuss the problem of causal inference, which seeks to identify causal relationships between variables. We then turn our attention to a fundamental challenge: It is impossible to completely characterize the dependence between all variables in a model, unless they are very few. This phenomenon, known as the curse of dimensionality, is the reason why independence assumptions are needed to make probabilistic models tractable. We conclude the chapter by describing two popular models based on such assumptions: Naive Bayes and Markov chains.
Le Liang, Southeast University, Nanjing,Shi Jin, Southeast University, Nanjing,Hao Ye, University of California, Santa Cruz,Geoffrey Ye Li, Imperial College of Science, Technology and Medicine, London
This chapter discusses how to build probabilistic models that include both discrete and continuous variables. Mathematically, this is achieved by defining them as random variables within the same probability space. In practice, the variables are manipulated using their marginal and conditional distributions. We define the conditional pmf of a discrete random variable given a continuous variable, and the conditional probability density of a continuous random variable given a discrete variable. We use these objects to build mixture models and apply them to model height in a population. Next, we describe Gaussian discriminant analysis, a classification method based on mixture models with Gaussian conditional distributions, and apply it to diagnose Alzheimer's disease. Then, we explain how to perform clustering using Gaussian mixture models and leverage the approach to cluster NBA players. Finally, we introduce the framework of Bayesian statistics which enables us to explicitly encode our uncertainty about model parameters, and use it to analyze poll data from the 2020 United States presidential election.