Statistics for Biomedical Engineers and Scientists - 1st Edition - ISBN: 9780081029398

Statistics for Biomedical Engineers and Scientists

1st Edition

How to Visualize and Analyze Data

Authors: Andrew King Robert Eckersley
Paperback ISBN: 9780081029398
Imprint: Academic Press
Published Date: 1st April 2019
Page Count: 324
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Description

Statistics for Biomedical Engineers and Scientists: How to Analyze and Visualize Data provides an intuitive understanding of the concepts of basic statistics, with a focus on solving biomedical problems. Readers will learn how to understand the fundamental concepts of descriptive and inferential statistics, analyze data and choose an appropriate hypothesis test to answer a given question, compute numerical statistical measures and perform hypothesis tests ‘by hand’, and visualize data and perform statistical analysis using MATLAB. Practical activities and exercises are provided, making this an ideal resource for students in biomedical engineering and the biomedical sciences who are in a course on basic statistics.

Key Features

  • Presents a practical guide on how to visualize and analyze statistical data
  • Provides numerous practical examples and exercises to illustrate the power of statistics in biomedical engineering applications
  • Gives an intuitive understanding of statistical tests
  • Covers practical skills by showing how to perform operations ‘by hand’ and by using MATLAB as a computational tool
  • Includes an online resource with downloadable materials for students and teachers

Readership

Biomedical: engineers, biomedical sciences: students, researchers

Table of Contents

1 Descriptive Statistics I: Univariate Statistics

1.1 Introduction

1.2 Types of Statistical Data

1.3 Univariate Data Visualisation

1.3.1 Dotplot

1.3.2 Histogram

1.3.3 Bar Chart

1.4 Measures of Central Tendency

1.4.1 Mean

1.4.2 Median

1.4.3 Mode

1.4.4 Calculating Measures of Central Tendency in MATLAB

1.4.5 Which Measure to Use?

1.5 Measures of Variation

1.5.1 Standard Deviation

1.5.2 Inter-Quartile Range

1.5.3 Calculating Measures of Variation in MATLAB

1.5.4 Which Measure of Variation to Use?

1.6 Visualising Measures of Variation

1.6.1 Visualising Mean and Standard Deviation

1.6.2 Visualising Median and IQR: the Box Plot

1.7 Summary

1.8 Further Resources

1.9 Exercises

2 Descriptive Statistics II: Bivariate Statistics

2.1 Introduction

2.2 Visualising Bivariate Statistics

2.2.1 Two Categorical Variables

2.2.2 Combining Categorical and Continuous Variables

2.2.3 Two Continuous Variables

2.2.4 General Comments on Choice of Visualisation

2.3 Pearson’s Correlation Coefficient

2.3.1 Example Use of Pearson’s Correlation Coefficient

2.3.2 p-values and Correlation Coefficient Values

2.4 Spearman’s Rank Correlation Coefficient

2.4.1 Example Use of Spearman’s Rank Correlation Coefficient

2.5 Which Measure of Correlation to Use?

2.6 Regression Analysis

2.6.1 Calculating the Equation of Best Fit Line Using MATLAB

2.6.2 Plotting the Best Fit Line

2.6.3 Using the Best Fit Line to Make Predictions

2.6.4 Fitting Non-linear Models

2.6.5 Fitting Higher Order Polynomials

2.7 Summary

2.8 Further Resources

2.9 Exercises

3 Descriptive Statistics III: ROC Analysis

3.1 Introduction

3.2 Notation

3.2.1 Sensitivity and Specificity

3.2.2 Positive and Negative Predictive Values

3.2.3 Example Calculation of Se, Sp, PPV and NPV

3.3 ROC Curves

3.4 Exercise

3.5 Recap on Scripts and Functions

3.6 Case Study: ROC Analysis

3.7 Summary

3.8 Further Resources

4 Inferential Statistics I: Basic Concepts

4.1 Introduction

4.2 Probability

4.2.1 Probabilities of Single Events

4.2.2 Probabilities of Multiple Events

4.3 Probability Distributions

4.3.1 Why the Normal Distribution is so Important: The

Central Limit Theorem

4.4 Standard Error of Mean

4.5 Confidence Intervals of Mean

4.6 Summary

4.7 Further Resources

4.8 Exercises

5 Inferential Statistics II: Parametric Hypothesis Testing

5.1 Introduction

5.2 Hypothesis Testing

5.2.1 Types of Data for Hypothesis Tests

5.3 The t-distribution and Student's t-test

5.4 One Sample Student’s t-test

5.5 Confidence Intervals for Small Samples

5.6 Two Sample Student’s t-test

5.6.1 Paired Data

5.6.2 Unpaired Data

5.6.3 Paired vs. Unpaired t-test

5.7 1-tailed vs. 2-tailed Tests

5.8 Summary

5.9 Further Resources

5.10 Exercises

6 Inferential Statistics III: Nonparametric Hypothesis Testing

6.1 Introduction

6.2 Sign Test

6.3 Wilcoxon Signed Rank Test

6.4 Mann-Whitney U test

6.5 Chi Square Hypothesis Test for Categorical Variables

6.6 Summary

6.7 Further Resources

6.8 Exercises

7 Inferential Statistics IV: Choosing a Hypothesis Test

7.1 Introduction

7.2 Visual Methods to Investigate Whether Sample Fits a Normal

Distribution

7.3 Numerical Methods to Investigate Whether Sample Fits a Normal Distribution

7.3.1 Probability Plot Correlation Coefficient

7.3.2 Comparing the Skews

7.3.3 Z-values

7.3.4 Shapiro-Wilk Test

7.3.5 Chi Square Test for Normality

7.4 So Should We Use a Parametric or Nonparametric Test?

7.5 Does it Matter if We Use the Wrong Test?

7.6 Summary

7.7 Further Resources

7.8 Exercises

8 Inferential Statistics V: Multiple Hypothesis Testing

8.1 Introduction

8.2 Bonferroni’s Correction

8.3 Analysis of Variance (ANOVA)

8.3.1 One Way ANOVA

8.3.2 Two Way ANOVA

8.4 Summary

8.5 Further Resources

8.6 Exercises

9 Experimental Design and Sample Size Calculations

9.1 Introduction

9.2 Experimental and Observational Studies

9.3 Random and Systematic Error (Bias)

9.4 Methods to Reduce Random and Systematic Errors

9.4.1 Blocking (Matching) Test and Control Subjects

9.4.2 Blinding

9.4.3 Multiple Measurement

9.4.4 Randomisation

9.5 Sample Size and Power Calculations

9.5.1 Illustration Power Calculation for Single Sample t-test

9.5.2 Illustration of a Sample Size Calculation

9.5.3 Power and Sample Size Calculations in MATLAB

9.6 Summary

9.7 Further Resources

9.8 Exercises

9.9 Experimental Design Case Studies

10 Statistical Shape Models

10.1 Introduction

10.2 SSMs and Dimensionality Reduction

10.3 Forming an SSM

10.3.1 Parameterise the Shape

10.3.2 Align the Centroids

10.3.3 Compute the Mean Shape Vector

10.3.4 Compute the Covariance Matrix

10.3.5 Compute the Eigenvectors and Eigenvalues

10.4 Producing New Shapes from an SSM

10.5 Biomedical Applications of SSMs

10.6 Summary

10.7 Further Resources

10.8 Exercises

11 Case Study on Descriptive and Inferential Statistics

11.1 Introduction

11.2 Data

11.3 Part A: Measuring Myocardium Thickness

11.4 Part B: Intra-observer Variability

11.5 Part C: Sample Analysis

11.6 Summary

11.7 Further Exercises

Details

No. of pages:
324
Language:
English
Copyright:
© Academic Press 2019
Published:
Imprint:
Academic Press
Paperback ISBN:
9780081029398

About the Author

Andrew King

Dr. King received a BSc. (Hons) degree in Computer Science from Manchester University in 1989, an MSc. (with distinction) in Cognition, Computing and Psychology from Warwick University in 1992, and a PhD degree in Computer Science from Warwick University in 1997. He has been a postdoctoral researcher with the Computational Imaging Sciences Group and the Division of Imaging Sciences at King’s College London, working mainly on registration, image-guided interventions and soft-tissue modelling. From 2001-2005 he worked as an Assistant Professor in the Computer Science department at Mekelle University in Northern Ethiopia. His research focuses on motion estimation and modelling.

Affiliations and Expertise

Division of Imaging Sciences and Biomedical Engineering, King's College London, UK

Robert Eckersley

Dr. Robert Eckersley is a Senior Lecturer in the School of Biomedical Engineering and Imaging Sciences at King’s College London. His research interests include all aspects of the physics and engineering of medical ultrasound imaging. He has a long standing interest in the development of microbubble contrast agents for quantitative functional imaging with ultrasound. He is currently PI on an EPSRC grant investigating the development of super-resolution strategies for ultrasound imaging and is an co-investigator on the Wellcome and EPSRC funded iFind project http://www.ifindproject.com.

Affiliations and Expertise

Senior Lecturer, Division of Imaging Sciences and Biomedical Engineering, King's College, London, UK

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