Clinical Radiotherapy Physics with MATLAB: A Problem-Solving Approach

281 Pages·2018·22.076 MB·English

by  Pavel Dvořák

Clinical Radiotherapy Physics
with MATLAB®
A Problem-Solving Approach
Series in Medical Physics and Biomedical Engineering
Series Editors: John G. Webster, E. Russell Ritenour, Slavik Tabakov,
and Kwan-Hoong Ng
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Clinical Radiotherapy Physics
with MATLAB®
A Problem-Solving Approach
Pavel Dvorak
MATLAB® is a trademark of The MathWorks, Inc. and is used with permission. The MathWorks does not warrant the accu-
racy of the text or exercises in this book. This book’s use or discussion of MATLAB® software or related products does not
constitute endorsement or sponsorship by The MathWorks of a particular pedagogical approach or particular use of the
MATLAB® software.
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Library of Congress Cataloging‑in‑Publication Data
Names: Dvorak, Pavel (Medical physicist), author.
Title: Clinical radiotherapy physics with MATLAB : a problem-solving approach
/ Pavel Dvorak.
Other titles: Series in medical physics and biomedical engineering.
Description: Boca Raton, FL : CRC Press, Taylor & Francis Group, [2018] |
Series: Series in medical physics and biomedical engineering | Includes
bibliographical references and index.
Identifiers: LCCN 2018001537| ISBN 9781498754996 (hardback ; alk. paper) |
ISBN 1498754996 (hardback ; alk. paper)
Subjects: LCSH: Medical physics--Data processing. | MATLAB.
Classification: LCC R895 .D86 2018 | DDC 610.1/53--dc23
LC record available at https://lccn.loc.gov/2018001537
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I dedicate this book to my late mother who
always encouraged me to do better.
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Contents
Foreword, xv
Preface, xvii
About the Series, xxi
Acknowledgements, xxiii
Acronyms and Abbreviations, xxv
Definitions of Terms, xxvii
Chapter 1 ◾ MATLAB Essentials and Principles of Simple Programming 1
ALL YOU NEED TO START 1
MATLAB Interface 2
Presenting Strategy for This Book 3
First Steps: Using MATLAB as a Pocket Calculator 4
First Steps: Vector Algebra and Composite Commands 5
First Steps: Data Plots and Figures 7
First Steps: Program Development (Scripting) 7
First Steps: Algorithmization 11
Workspace Saving and Loading 12
Variable Saving and Loading 12
Path Setting/Adding 13
DATA TYPES IN MATLAB 13
Numeric Types 13
Character and String Data 14
Cell Arrays 14
Structure Arrays 14
BASIC OUTPUT AND EXPORT OPTIONS 15
BASIC INPUT AND IMPORT OPTIONS 18
vii
viii ◾ Contents
MANAGING FILES AND FOLDERS 22
A SIMPLE CASE STUDY 22
Problem Definition 23
Problem Specification 23
Algorithmization 25
Scripting 26
Testing 27
Documentation 29
REFERENCES 30
Chapter 2 ◾ Radiotherapy Physics Related Data Types
and Basic Operations 31
INTRODUCTION 31
SCALARS 32
1D DATA 32
Graphical Display 32
Beam Scans 32
Dose Volume Histogram 33
Interpolating Dose Profiles 33
Matching Dose Profiles 34
Finding CAX 35
0
Finding CAX 35
c
Finding edgeR/edgeL 35
Symmetric Averaging Dose Profile 36
Mirroring Dose Profile 38
Smoothing a Dose Profile 39
DVH: Differential and Integral Format 40
DVH Statistics 41
2D DATA 43
Graphical Display 44
Interpolation and Resizing 45
Filtering 48
Rotations, Mirroring, Zoom 48
Regions of Interest 49
Matching 2D Data 50
3D DATA 51
Contents   ◾   ix
Graphical Display 51
Interpolation and Resizing 52
Matching 3D Data 52
Rotations and Mirroring 53
Regions of Interest 53
Histogram 53
4D DATA 54
CELL ARRAY 55
STRUCTURE ARRAY 55
STRING 57
REFERENCES 57
Chapter 3 ◾ Reconstructing Basic DICOM RT Data 59
INTRODUCTION 59
DICOM: ALL YOU NEED TO KNOW TO START WORKING 59
RADIOTHERAPY SPECIFIC MODULE: DICOM RT 60
IMPORTING DICOM DATA 62
Image Series 62
Secondary Image Series (MRI, PET, …) 70
Volumes of Interest (RT Structures) 70
Dose 76
DVH 78
Other DICOM RT Data in Radiotherapy 80
RECONSTRUCTING 3D DOSE DISTRIBUTION 82
Matching the Dose with the CT Model 84
Calculating and Comparing DVHs 87
REFERENCES 90
Chapter 4 ◾ Modifying DICOM Data in Radiotherapy 91
INTRODUCTION 91
IMPORT AND RE-EXPORT WITHOUT MODIFICATION 92
DICOM Image Data 92
RT Treatment Plan (RTPLAN) 93
RT Structure Set (RTSTRUCT) 94
DICOM UIDs CROSS-REFERENCING EXAMPLES 95
ANONYMIZING IMAGES AND OTHER DICOM DATA 97