Bayesian Analysis with Python

Author: Osvaldo Martin
Publisher: Packt Publishing Ltd
ISBN: 9781785889851
Release Date: 2016-11-25
Genre: Computers

Unleash the power and flexibility of the Bayesian framework About This Book Simplify the Bayes process for solving complex statistical problems using Python; Tutorial guide that will take the you through the journey of Bayesian analysis with the help of sample problems and practice exercises; Learn how and when to use Bayesian analysis in your applications with this guide. Who This Book Is For Students, researchers and data scientists who wish to learn Bayesian data analysis with Python and implement probabilistic models in their day to day projects. Programming experience with Python is essential. No previous statistical knowledge is assumed. What You Will Learn Understand the essentials Bayesian concepts from a practical point of view Learn how to build probabilistic models using the Python library PyMC3 Acquire the skills to sanity-check your models and modify them if necessary Add structure to your models and get the advantages of hierarchical models Find out how different models can be used to answer different data analysis questions When in doubt, learn to choose between alternative models. Predict continuous target outcomes using regression analysis or assign classes using logistic and softmax regression. Learn how to think probabilistically and unleash the power and flexibility of the Bayesian framework In Detail The purpose of this book is to teach the main concepts of Bayesian data analysis. We will learn how to effectively use PyMC3, a Python library for probabilistic programming, to perform Bayesian parameter estimation, to check models and validate them. This book begins presenting the key concepts of the Bayesian framework and the main advantages of this approach from a practical point of view. Moving on, we will explore the power and flexibility of generalized linear models and how to adapt them to a wide array of problems, including regression and classification. We will also look into mixture models and clustering data, and we will finish with advanced topics like non-parametrics models and Gaussian processes. With the help of Python and PyMC3 you will learn to implement, check and expand Bayesian models to solve data analysis problems. Style and approach Bayes algorithms are widely used in statistics, machine learning, artificial intelligence, and data mining. This will be a practical guide allowing the readers to use Bayesian methods for statistical modelling and analysis using Python.

Think Bayes

Author: Allen B. Downey
Publisher: "O'Reilly Media, Inc."
ISBN: 9781491945438
Release Date: 2013-09-12
Genre: Mathematics

If you know how to program with Python and also know a little about probability, you’re ready to tackle Bayesian statistics. With this book, you'll learn how to solve statistical problems with Python code instead of mathematical notation, and use discrete probability distributions instead of continuous mathematics. Once you get the math out of the way, the Bayesian fundamentals will become clearer, and you’ll begin to apply these techniques to real-world problems. Bayesian statistical methods are becoming more common and more important, but not many resources are available to help beginners. Based on undergraduate classes taught by author Allen Downey, this book’s computational approach helps you get a solid start. Use your existing programming skills to learn and understand Bayesian statistics Work with problems involving estimation, prediction, decision analysis, evidence, and hypothesis testing Get started with simple examples, using coins, M&Ms, Dungeons & Dragons dice, paintball, and hockey Learn computational methods for solving real-world problems, such as interpreting SAT scores, simulating kidney tumors, and modeling the human microbiome.

Doing Bayesian Data Analysis

Author: John Kruschke
Publisher: Academic Press
ISBN: 0123814863
Release Date: 2010-11-25
Genre: Mathematics

There is an explosion of interest in Bayesian statistics, primarily because recently created computational methods have finally made Bayesian analysis tractable and accessible to a wide audience. Doing Bayesian Data Analysis, A Tutorial Introduction with R and BUGS, is for first year graduate students or advanced undergraduates and provides an accessible approach, as all mathematics is explained intuitively and with concrete examples. It assumes only algebra and ‘rusty’ calculus. Unlike other textbooks, this book begins with the basics, including essential concepts of probability and random sampling. The book gradually climbs all the way to advanced hierarchical modeling methods for realistic data. The text provides complete examples with the R programming language and BUGS software (both freeware), and begins with basic programming examples, working up gradually to complete programs for complex analyses and presentation graphics. These templates can be easily adapted for a large variety of students and their own research needs.The textbook bridges the students from their undergraduate training into modern Bayesian methods. Accessible, including the basics of essential concepts of probability and random sampling Examples with R programming language and BUGS software Comprehensive coverage of all scenarios addressed by non-bayesian textbooks- t-tests, analysis of variance (ANOVA) and comparisons in ANOVA, multiple regression, and chi-square (contingency table analysis). Coverage of experiment planning R and BUGS computer programming code on website Exercises have explicit purposes and guidelines for accomplishment

Bayesian Methods for Hackers

Author: Cameron Davidson-Pilon
Publisher: Addison-Wesley Professional
ISBN: 9780133902921
Release Date: 2015-09-30
Genre: Computers

Master Bayesian Inference through Practical Examples and Computation–Without Advanced Mathematical Analysis Bayesian methods of inference are deeply natural and extremely powerful. However, most discussions of Bayesian inference rely on intensely complex mathematical analyses and artificial examples, making it inaccessible to anyone without a strong mathematical background. Now, though, Cameron Davidson-Pilon introduces Bayesian inference from a computational perspective, bridging theory to practice–freeing you to get results using computing power. Bayesian Methods for Hackers illuminates Bayesian inference through probabilistic programming with the powerful PyMC language and the closely related Python tools NumPy, SciPy, and Matplotlib. Using this approach, you can reach effective solutions in small increments, without extensive mathematical intervention. Davidson-Pilon begins by introducing the concepts underlying Bayesian inference, comparing it with other techniques and guiding you through building and training your first Bayesian model. Next, he introduces PyMC through a series of detailed examples and intuitive explanations that have been refined after extensive user feedback. You’ll learn how to use the Markov Chain Monte Carlo algorithm, choose appropriate sample sizes and priors, work with loss functions, and apply Bayesian inference in domains ranging from finance to marketing. Once you’ve mastered these techniques, you’ll constantly turn to this guide for the working PyMC code you need to jumpstart future projects. Coverage includes • Learning the Bayesian “state of mind” and its practical implications • Understanding how computers perform Bayesian inference • Using the PyMC Python library to program Bayesian analyses • Building and debugging models with PyMC • Testing your model’s “goodness of fit” • Opening the “black box” of the Markov Chain Monte Carlo algorithm to see how and why it works • Leveraging the power of the “Law of Large Numbers” • Mastering key concepts, such as clustering, convergence, autocorrelation, and thinning • Using loss functions to measure an estimate’s weaknesses based on your goals and desired outcomes • Selecting appropriate priors and understanding how their influence changes with dataset size • Overcoming the “exploration versus exploitation” dilemma: deciding when “pretty good” is good enough • Using Bayesian inference to improve A/B testing • Solving data science problems when only small amounts of data are available Cameron Davidson-Pilon has worked in many areas of applied mathematics, from the evolutionary dynamics of genes and diseases to stochastic modeling of financial prices. His contributions to the open source community include lifelines, an implementation of survival analysis in Python. Educated at the University of Waterloo and at the Independent University of Moscow, he currently works with the online commerce leader Shopify.

Bayes Rule

Author: James V. Stone
Publisher: Sebtel Press
ISBN: 9780956372840
Release Date: 2013-06-01
Genre: Bayesian statistical decision theory

In this richly illustrated book, a range of accessible examples are used to show how Bayes' rule is actually a natural consequence of commonsense reasoning. The tutorial style of writing, combined with a comprehensive glossary, makes this an ideal primer for the novice who wishes to become familiar with the basic principles of Bayesian analysis.

An Introduction to Statistics with Python

Author: Thomas Haslwanter
Publisher: Springer
ISBN: 9783319283166
Release Date: 2016-07-20
Genre: Computers

This textbook provides an introduction to the free software Python and its use for statistical data analysis. It covers common statistical tests for continuous, discrete and categorical data, as well as linear regression analysis and topics from survival analysis and Bayesian statistics. Working code and data for Python solutions for each test, together with easy-to-follow Python examples, can be reproduced by the reader and reinforce their immediate understanding of the topic. With recent advances in the Python ecosystem, Python has become a popular language for scientific computing, offering a powerful environment for statistical data analysis and an interesting alternative to R. The book is intended for master and PhD students, mainly from the life and medical sciences, with a basic knowledge of statistics. As it also provides some statistics background, the book can be used by anyone who wants to perform a statistical data analysis.

Bayesian Data Analysis Third Edition

Author: Andrew Gelman
Publisher: CRC Press
ISBN: 9781439840955
Release Date: 2013-11-01
Genre: Mathematics

Now in its third edition, this classic book is widely considered the leading text on Bayesian methods, lauded for its accessible, practical approach to analyzing data and solving research problems. Bayesian Data Analysis, Third Edition continues to take an applied approach to analysis using up-to-date Bayesian methods. The authors—all leaders in the statistics community—introduce basic concepts from a data-analytic perspective before presenting advanced methods. Throughout the text, numerous worked examples drawn from real applications and research emphasize the use of Bayesian inference in practice. New to the Third Edition Four new chapters on nonparametric modeling Coverage of weakly informative priors and boundary-avoiding priors Updated discussion of cross-validation and predictive information criteria Improved convergence monitoring and effective sample size calculations for iterative simulation Presentations of Hamiltonian Monte Carlo, variational Bayes, and expectation propagation New and revised software code The book can be used in three different ways. For undergraduate students, it introduces Bayesian inference starting from first principles. For graduate students, the text presents effective current approaches to Bayesian modeling and computation in statistics and related fields. For researchers, it provides an assortment of Bayesian methods in applied statistics. Additional materials, including data sets used in the examples, solutions to selected exercises, and software instructions, are available on the book’s web page.

Case Studies in Bayesian Statistical Modelling and Analysis

Author: Clair L. Alston
Publisher: John Wiley & Sons
ISBN: 9781118394328
Release Date: 2012-10-10
Genre: Mathematics

Provides an accessible foundation to Bayesian analysis using real world models This book aims to present an introduction to Bayesian modelling and computation, by considering real case studies drawn from diverse fields spanning ecology, health, genetics and finance. Each chapter comprises a description of the problem, the corresponding model, the computational method, results and inferences as well as the issues that arise in the implementation of these approaches. Case Studies in Bayesian Statistical Modelling and Analysis: Illustrates how to do Bayesian analysis in a clear and concise manner using real-world problems. Each chapter focuses on a real-world problem and describes the way in which the problem may be analysed using Bayesian methods. Features approaches that can be used in a wide area of application, such as, health, the environment, genetics, information science, medicine, biology, industry and remote sensing. Case Studies in Bayesian Statistical Modelling and Analysis is aimed at statisticians, researchers and practitioners who have some expertise in statistical modelling and analysis, and some understanding of the basics of Bayesian statistics, but little experience in its application. Graduate students of statistics and biostatistics will also find this book beneficial.

Statistical Rethinking

Author: Richard McElreath
Publisher: CRC Press
ISBN: 9781315362618
Release Date: 2018-01-03
Genre: Mathematics

Statistical Rethinking: A Bayesian Course with Examples in R and Stan builds readers’ knowledge of and confidence in statistical modeling. Reflecting the need for even minor programming in today’s model-based statistics, the book pushes readers to perform step-by-step calculations that are usually automated. This unique computational approach ensures that readers understand enough of the details to make reasonable choices and interpretations in their own modeling work. The text presents generalized linear multilevel models from a Bayesian perspective, relying on a simple logical interpretation of Bayesian probability and maximum entropy. It covers from the basics of regression to multilevel models. The author also discusses measurement error, missing data, and Gaussian process models for spatial and network autocorrelation. By using complete R code examples throughout, this book provides a practical foundation for performing statistical inference. Designed for both PhD students and seasoned professionals in the natural and social sciences, it prepares them for more advanced or specialized statistical modeling. Web Resource The book is accompanied by an R package (rethinking) that is available on the author’s website and GitHub. The two core functions (map and map2stan) of this package allow a variety of statistical models to be constructed from standard model formulas.

Bayesian Models for Astrophysical Data

Author: Joseph M. Hilbe
Publisher: Cambridge University Press
ISBN: 9781108210744
Release Date: 2017-04-30
Genre: Mathematics

This comprehensive guide to Bayesian methods in astronomy enables hands-on work by supplying complete R, JAGS, Python, and Stan code, to use directly or adapt. It begins by examining the normal model from both frequentist and Bayesian perspectives, then progresses to a full range of Bayesian generalized linear and mixed or hierarchical models, as well as additional types of models such as ABC and INLA. The book provides code that is largely unavailable elsewhere and includes details on interpreting and evaluating Bayesian models. Initial discussions offer models in synthetic form so that readers can easily adapt them to their own data; later the models are applied to real astronomical data. The consistent focus is on hands-on modeling, analysis of data, and interpretation to address scientific questions. A must-have for astronomers, the book's concrete approach will also be attractive to researchers in the sciences more broadly.

Think Stats

Author: Allen B. Downey
Publisher: "O'Reilly Media, Inc."
ISBN: 9781491907375
Release Date: 2014-10-16
Genre: Computers

If you know how to program, you have the skills to turn data into knowledge, using tools of probability and statistics. This concise introduction shows you how to perform statistical analysis computationally, rather than mathematically, with programs written in Python. By working with a single case study throughout this thoroughly revised book, you’ll learn the entire process of exploratory data analysis—from collecting data and generating statistics to identifying patterns and testing hypotheses. You’ll explore distributions, rules of probability, visualization, and many other tools and concepts. New chapters on regression, time series analysis, survival analysis, and analytic methods will enrich your discoveries. Develop an understanding of probability and statistics by writing and testing code Run experiments to test statistical behavior, such as generating samples from several distributions Use simulations to understand concepts that are hard to grasp mathematically Import data from most sources with Python, rather than rely on data that’s cleaned and formatted for statistics tools Use statistical inference to answer questions about real-world data

Python Machine Learning By Example

Author: Yuxi (Hayden) Liu
Publisher: Packt Publishing Ltd
ISBN: 9781783553129
Release Date: 2017-05-31
Genre: Computers

Take tiny steps to enter the big world of data science through this interesting guide About This Book Learn the fundamentals of machine learning and build your own intelligent applications Master the art of building your own machine learning systems with this example-based practical guide Work with important classification and regression algorithms and other machine learning techniques Who This Book Is For This book is for anyone interested in entering the data science stream with machine learning. Basic familiarity with Python is assumed. What You Will Learn Exploit the power of Python to handle data extraction, manipulation, and exploration techniques Use Python to visualize data spread across multiple dimensions and extract useful features Dive deep into the world of analytics to predict situations correctly Implement machine learning classification and regression algorithms from scratch in Python Be amazed to see the algorithms in action Evaluate the performance of a machine learning model and optimize it Solve interesting real-world problems using machine learning and Python as the journey unfolds In Detail Data science and machine learning are some of the top buzzwords in the technical world today. A resurging interest in machine learning is due to the same factors that have made data mining and Bayesian analysis more popular than ever. This book is your entry point to machine learning. This book starts with an introduction to machine learning and the Python language and shows you how to complete the setup. Moving ahead, you will learn all the important concepts such as, exploratory data analysis, data preprocessing, feature extraction, data visualization and clustering, classification, regression and model performance evaluation. With the help of various projects included, you will find it intriguing to acquire the mechanics of several important machine learning algorithms – they are no more obscure as they thought. Also, you will be guided step by step to build your own models from scratch. Toward the end, you will gather a broad picture of the machine learning ecosystem and best practices of applying machine learning techniques. Through this book, you will learn to tackle data-driven problems and implement your solutions with the powerful yet simple language, Python. Interesting and easy-to-follow examples, to name some, news topic classification, spam email detection, online ad click-through prediction, stock prices forecast, will keep you glued till you reach your goal. Style and approach This book is an enticing journey that starts from the very basics and gradually picks up pace as the story unfolds. Each concept is first succinctly defined in the larger context of things, followed by a detailed explanation of their application. Every concept is explained with the help of a project that solves a real-world problem, and involves hands-on work—giving you a deep insight into the world of machine learning. With simple yet rich language—Python—you will understand and be able to implement the examples with ease.

Regression Analysis with Python

Author: Luca Massaron
Publisher: Packt Publishing Ltd
ISBN: 9781783980741
Release Date: 2016-02-29
Genre: Computers

Learn the art of regression analysis with Python About This Book Become competent at implementing regression analysis in Python Solve some of the complex data science problems related to predicting outcomes Get to grips with various types of regression for effective data analysis Who This Book Is For The book targets Python developers, with a basic understanding of data science, statistics, and math, who want to learn how to do regression analysis on a dataset. It is beneficial if you have some knowledge of statistics and data science. What You Will Learn Format a dataset for regression and evaluate its performance Apply multiple linear regression to real-world problems Learn to classify training points Create an observation matrix, using different techniques of data analysis and cleaning Apply several techniques to decrease (and eventually fix) any overfitting problem Learn to scale linear models to a big dataset and deal with incremental data In Detail Regression is the process of learning relationships between inputs and continuous outputs from example data, which enables predictions for novel inputs. There are many kinds of regression algorithms, and the aim of this book is to explain which is the right one to use for each set of problems and how to prepare real-world data for it. With this book you will learn to define a simple regression problem and evaluate its performance. The book will help you understand how to properly parse a dataset, clean it, and create an output matrix optimally built for regression. You will begin with a simple regression algorithm to solve some data science problems and then progress to more complex algorithms. The book will enable you to use regression models to predict outcomes and take critical business decisions. Through the book, you will gain knowledge to use Python for building fast better linear models and to apply the results in Python or in any computer language you prefer. Style and approach This is a practical tutorial-based book. You will be given an example problem and then supplied with the relevant code and how to walk through it. The details are provided in a step by step manner, followed by a thorough explanation of the math underlying the solution. This approach will help you leverage your own data using the same techniques.

Statistics Data Mining and Machine Learning in Astronomy

Author: Željko Ivezić
Publisher: Princeton University Press
ISBN: 9781400848911
Release Date: 2014-01-05
Genre: Science

As telescopes, detectors, and computers grow ever more powerful, the volume of data at the disposal of astronomers and astrophysicists will enter the petabyte domain, providing accurate measurements for billions of celestial objects. This book provides a comprehensive and accessible introduction to the cutting-edge statistical methods needed to efficiently analyze complex data sets from astronomical surveys such as the Panoramic Survey Telescope and Rapid Response System, the Dark Energy Survey, and the upcoming Large Synoptic Survey Telescope. It serves as a practical handbook for graduate students and advanced undergraduates in physics and astronomy, and as an indispensable reference for researchers. Statistics, Data Mining, and Machine Learning in Astronomy presents a wealth of practical analysis problems, evaluates techniques for solving them, and explains how to use various approaches for different types and sizes of data sets. For all applications described in the book, Python code and example data sets are provided. The supporting data sets have been carefully selected from contemporary astronomical surveys (for example, the Sloan Digital Sky Survey) and are easy to download and use. The accompanying Python code is publicly available, well documented, and follows uniform coding standards. Together, the data sets and code enable readers to reproduce all the figures and examples, evaluate the methods, and adapt them to their own fields of interest. Describes the most useful statistical and data-mining methods for extracting knowledge from huge and complex astronomical data sets Features real-world data sets from contemporary astronomical surveys Uses a freely available Python codebase throughout Ideal for students and working astronomers

Mastering matplotlib

Author: Duncan M. McGreggor
Publisher: Packt Publishing Ltd
ISBN: 9781783987559
Release Date: 2015-06-29
Genre: Computers

matplotlib is a Python plotting library that provides a large feature set for a multitude of platforms. Given the depth of the library's legacy and the variety of related open source projects, gaining expert knowledge can be a time-consuming and often confusing process. You'll begin your exciting journey learning about the skills that are necessary in leading technical teams for a visualization project or to become a matplotlib contributor. Supported by highly-detailed IPython Notebooks, this book takes you through the conceptual components underlying the library and then provides a detailed overview of its APIs. From there, you will learn about event handling and how to code for interactive plots. Next you will move on to customization techniques, local configuration of matplotib, and then deployments in Cloud environments. The adventure culminates in an exploration of big data visualization and matplotlib clustering.