关于此课程： 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).
制作方： Johns Hopkins University
教学方： Dr. Elizabeth Sweeney , Rice Academy Postdoctoral Fellow
Biostatistics
教学方： Ciprian M. Crainiceanu, Professor
Biostatstics
教学方： John Muschelli III , Assistant Scientist
Biostatistics
| 级别 | 中级 |
| 承诺学习时间 | 4 weeks of study, 2-4 hours/week |
| 语言 | English |
| 如何通过 | 通过所有计分作业以完成课程。 |
| 用户评分 |
授课大纲
第 1 周
Introduction
3 个视频, 1 个阅读材料, 1 个练习测验
- Reading: Syllabus
- 视频: Introduction
- 视频: Structural MRI and R
- Practice Quiz: Theme 1 Quiz
第 2 周
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 个视频
- 视频: The NIfTI Format
- 视频: Basic Visualization 1
- 视频: Basic Visualization 2
- 视频: Basic Data Manipulation
- 视频: Transformations and Smoothing
- 视频: Basic MRI Contrasts
已评分: Theme 2 Lecture 1 Quiz
已评分: Theme 2 Lecture 2 Quiz
已评分: Theme 2 Lecture 3 Quiz
已评分: Theme 2 Lecture 4 Quiz
已评分: Theme 2 Lecture 5 Quiz
已评分: Theme 2 Lecture 6 Quiz
第 3 周
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 个视频
- 视频: Registration
- 视频: fslr: System Requirements
- 视频: Bias Field Correction Using fslr
- 视频: Brain Extraction using fslr
- 视频: Image Registration Using fslr
- 视频: Installing ANTsR
- 视频: Basic Data Manipulation with ANTsR
- 视频: Pre-Processing with ANTSR
已评分: Theme 3 Quiz 1
已评分: Theme 3 Quiz 2
已评分: Theme 3 Quiz 3
已评分: Theme 3 Quiz 4
已评分: Theme 3 Quiz 5
已评分: Theme 3 Quiz 6
已评分: Theme 3 Quiz 7
已评分: Theme 3 Quiz 8
已评分: Theme 3 Quiz 9
第 4 周
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 个视频, 1 个阅读材料
- 视频: Co-Registration using fslr
- 视频: Co-Registration using ANTsR
- 视频: Wrapper Functions for Processing Pipelines
- 视频: Across-Visit Co-Registration of T1 Images
- 视频: Rigid Registration to a Template
- 视频: Affine Registration of T1 to Template
- 视频: Nonlinear Registration of T1 to Template
- 视频: Getting ROI Anatomic Information from Non-Linear Registration
- 视频: Tissue-Level Segmentation
- 视频: Papayar: Interactively Viewing Images in R
- Reading: Papayar Script
已评分: Theme 4 Quiz 1
已评分: Theme 4 Quiz 2
已评分: Theme 4 Quiz 3
已评分: Theme 4 Quiz 4
已评分: Theme 4 Quiz 5
已评分: Theme 4 Quiz 6
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已评分: Theme 4 Quiz 10
常见问题解答
运作方式
Coursework
Each course is like an interactive textbook, featuring pre-recorded videos, quizzes and projects.
Help from Your Peers
Connect with thousands of other learners and debate ideas, discuss course material, and get help mastering concepts.
Certificates
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制作方
Johns Hopkins University
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.
评分和审阅
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
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.