NSU Oceanographic Campus Library Software Resources: ImageJ
General Information
ImageJ can be found on all of the Oceanographic Campus Library's computer stations.
ImageJ is a public domain, Java-based image processing program developed at the National Institutes of Health. ImageJ was designed with an open architecture that provides extensibility via Java plugins and recordable macros. Custom acquisition, analysis and processing plugins can be developed using ImageJ's built-in editor and a Java compiler. User-written plugins make it possible to solve many image processing and analysis problems, from three-dimensional live-cell imaging to radiological image processing, multiple imaging system data comparisons to automated hematology systems. ImageJ's plugin architecture and built-in development environment has made it a popular platform for teaching image processing. It may be downloaded here: https://imagej.nih.gov/ij/download.html
Library Resources
Image Processing with Imagej - Second Edition by
Extract and analyze data from complex images with ImageJ, the world's leading image processing tool About This Book Design automated image-processing solutions and speed up image-processing tasks with ImageJ Create quality and intuitive interfaces for image processing by developing a basic framework for ImageJ plugins. Tackle even the most sophisticated datasets and complex images Who This Book Is For The book has been created for engineers, scientists, and developers eager to tackle image processing with one of the leading tools available. No prior knowledge of ImageJ is needed. Familiarity with Java programming will be required for readers to code their own routines using ImageJ. What You Will Learn Install and set up ImageJ for image processing. Process images using ImageJ's built-in tools Create macros to perform repetitive processing tasks Set up and use an integrated development environment for ImageJ plugins Create plugins with a user-friendly interface for processing Use established ImageJ plugins for processing and quantification Generate a simple interface based on a real world example and create other interfaces for other projects Speed up interface development by setting multiple parameters interactively In Detail Advances in image processing have been vital for the scientific and technological communities, making it possible to analyze images in greater detail than ever before. But as images become larger and more complex, advanced processing techniques are required. ImageJ is built for the modern challenges of image processing - it's one of the key tools in its development, letting you automate basic tasks so you can focus on sophisticated, in depth analysis. This book demonstrates how to put ImageJ into practice. It outlines its key features and demonstrates how to create your own image processing applications using macros and ImageJ plugins. Once you've got to grips with the basics of ImageJ, you'll then discover how to build a number of different image processing solutions. From simple tasks to advanced and automated image processing, you'll gain confidence with this innovative and powerful tool - however and whatever you are using it for. Style and approach A step-by-step guide to image processing and developing macros and plugins in ImageJ. The book will progress from using the built-in tools to macros and finally plugins for image processing."
Call Number: E-BOOKISBN: 1785881582Publication Date: 2015-11-30
Digital Image Processing by
This revised and expanded new edition of an internationally successful classic presents an accessible introduction to the key methods in digital image processing for both practitioners and teachers. Emphasis is placed on practical application, presenting precise algorithmic descriptions in an unusually high level of detail, while highlighting direct connections between the mathematical foundations and concrete implementation. The text is supported by practical examples and carefully constructed chapter-ending exercises drawn from the authors' years of teaching experience, including easily adaptable Java code and completely worked out examples. Source code, test images and additional instructor materials are also provided at an associated website. Digital Image Processing is the definitive textbook for students, researchers, and professionals in search of critical analysis and modern implementations of the most important algorithms in the field, and is also eminently suitable for self-study.
Call Number: E-BOOKISBN: 9781447166849Publication Date: 2016-06-23
Principles of Digital Image Processing by
This textbook is the third of three volumes which provide a modern, algorithmic introduction to digital image processing, designed to be used both by learners desiring a firm foundation on which to build, and practitioners in search of critical analysis and concrete implementations of the most important techniques. This volume builds upon the introductory material presented in the first two volumes with additional key concepts and methods in image processing. Features: practical examples and carefully constructed chapter-ending exercises; real implementations, concise mathematical notation, and precise algorithmic descriptions designed for programmers and practitioners; easily adaptable Java code and completely worked-out examples for easy inclusion in existing applications; uses ImageJ; provides a supplementary website with the complete Java source code, test images, and corrections; additional presentation tools for instructors including a complete set of figures, tables, and mathematical elements.
Call Number: E-BOOKISBN: 9781848829190Publication Date: 2013-11-18
O'Reilly for Higher Education
O'Reilly for Higher EducationLocal access only for NSU. Remote access only for NSU. - ProQuest
Provides over 5,500 e-books covering topics including IT networking, programming, project management, certification preparation, and digital media. Content is published by more than 100 publishing partners including O'Reilly, IBM Press, Adobe Press, Que, Microsoft, and Wiley. Contents are frequently updated with the latest titles and editions. After logging in, users must select "Institution not listed". Users without a personal O’Reilly account should then enter their NSU email to sign in. Users who previously created a personal O’Reilly account should select "already a user" to sign in or reset a password.
If you experience login issues with your personal O'Reilly user account please email customercare@oreilly.com so that your account can be updated. 
Online Tutorials and Training
- ImageJ Basics
Basics of using ImageJ for biological image analysis. - Measuring Fish Eggs with ImageJ (Fiji)
This demonstrates a technique for manually measuring the size of fish eggs. After we get images from the microscope (and a calibration image), we use a pen-type interface or the mouse to trace each egg in black. Then, we use a modification of the "WandAutoMeasure" tool to measure each egg. - Measuring a length in an image using ImageJ
This video described the steps required in measuring a length distance over an image. - ImageJ multi line measurement
Show permanent line at image using ROI manager. - Counting Cells with ImageJ
Keep in mind that ImageJ processing is not perfect. However, the error of missing cells may be "corrected" by the error of including some noise. - Automated Cell Counting in ImageJ
A quick tutorial on using ImageJ to count cells automatically. - Using ImageJ to quantify protein bands on a PAGE gel.
This video was made by Maryville College Biology student Lauren Evans as part of her Senior Study. It shows the procedure for quantifying protein bands using ImageJ software. - Using ImageJ to Measure Surface Area
A quick tutorial on using ImageJ to measure surface area.
