Об этом курсе: Neurohacking describes how to use the R programming language (https://cran.r-project.org/) and its associated package to perform manipulation, processing, and analysis of neuroimaging data. We focus on publicly-available structural magnetic resonance imaging (MRI). We discuss concepts such as inhomogeneity correction, image registration, and image visualization. By the end of this course, you will be able to: Read/write images of the brain in the NIfTI (Neuroimaging Informatics Technology Initiative) format Visualize and explore these images Perform inhomogeneity correction, brain extraction, and image registration (within a subject and to a template).
Автор: Университет Джонса Хопкинса
Преподаватели: Dr. Elizabeth Sweeney , Rice Academy Postdoctoral Fellow
Biostatistics
Преподаватели: Ciprian M. Crainiceanu, Professor
Biostatstics
Преподаватели: John Muschelli III , Assistant Scientist
Biostatistics
| Уровень | Intermediate |
| Выполнение | 4 weeks of study, 2-4 hours/week |
| Язык | English |
| Как пройти курс | Чтобы пройти курс, выполните все оцениваемые задания. |
| Оценки пользователей |
Программа курса
НЕДЕЛЯ 1
Introduction
3 видео, 1 материал для самостоятельного изучения, 1 practice quiz
- Видео: Meet the Team
- Reading: Syllabus
- Видео: Introduction
- Видео: Structural MRI and R
- Practice Quiz: Theme 1 Quiz
НЕДЕЛЯ 2
Neuroimaging: Formats and Visualization
In this section, we will discuss different formats that brain images come in, as well as some of the commonly done magnetic resonance imaging (MRI) scans.
7 видео
- Видео: Data Structures and Operations
- Видео: The NIfTI Format
- Видео: Basic Visualization 1
- Видео: Basic Visualization 2
- Видео: Basic Data Manipulation
- Видео: Transformations and Smoothing
- Видео: Basic MRI Contrasts
Оцениваемый: Theme 2 Lecture 1 Quiz
Оцениваемый: Theme 2 Lecture 2 Quiz
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НЕДЕЛЯ 3
Image Processing
In this section, we will discuss the steps done to process brain MRI data. We will discuss inhomogeneity correction, brain extraction or skull stripping, and various image registration techniques.
9 видео
- Видео: Preprocessing: An Overview
- Видео: Registration
- Видео: fslr: System Requirements
- Видео: Bias Field Correction Using fslr
- Видео: Brain Extraction using fslr
- Видео: Image Registration Using fslr
- Видео: Installing ANTsR
- Видео: Basic Data Manipulation with ANTsR
- Видео: Pre-Processing with ANTSR
Оцениваемый: Theme 3 Quiz 1
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НЕДЕЛЯ 4
Extended Image Processing
In this section, we will discuss the different types of registration and how one would go through processing a multi-sequence MRI scan, as well as wrapper functions that make the process much easier. We also cover interactive exploration of brain image data and tissue-level (white/gray matter and cerebrospinal fluid (CSF)) segmentation from a T1-weighted image.
11 видео, 1 материал для самостоятельного изучения
- Видео: Advanced Brain Image Processing
- Видео: Co-Registration using fslr
- Видео: Co-Registration using ANTsR
- Видео: Wrapper Functions for Processing Pipelines
- Видео: Across-Visit Co-Registration of T1 Images
- Видео: Rigid Registration to a Template
- Видео: Affine Registration of T1 to Template
- Видео: Nonlinear Registration of T1 to Template
- Видео: Getting ROI Anatomic Information from Non-Linear Registration
- Видео: Tissue-Level Segmentation
- Видео: Papayar: Interactively Viewing Images in R
- Reading: Papayar Script
Оцениваемый: Theme 4 Quiz 1
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Авторы
Университет Джонса Хопкинса
The mission of The Johns Hopkins University is to educate its students and cultivate their capacity for life-long learning, to foster independent and original research, and to bring the benefits of discovery to the world.
Рейтинги и отзывы
Great concise walk-through of neuro-imaging techniques. Low quality audio and a lot of background noise though.
Student presenters are not as good as professors.
Should have more practical work
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AJ
Great course. Learned quite a lot from the course. Only problem was the difficulty at first with the software and libraries stubbornly refusing to get setup. But, after realizing there was a VM provided with all intended software installed, everything was smooth sailing from there.