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).
提供方
约翰霍普金斯大学
教学大纲 - 您将从这门课程中学到什么
周
1完成时间为 1 小时
Introduction
3 个视频 （总计 30 分钟）, 1 个阅读材料, 1 个测验
1 个阅读材料
Syllabus10分钟
1 个练习
Theme 1 Quiz16分钟
周
2完成时间为 2 小时
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 （总计 74 分钟）, 6 个测验
7 个视频
The NIfTI Format9分钟
Basic Visualization 19分钟
Basic Visualization 29分钟
Basic Data Manipulation9分钟
Transformations and Smoothing14分钟
Basic MRI Contrasts9分钟
6 个练习
Theme 2 Lecture 1 Quiz10分钟
Theme 2 Lecture 2 Quiz10分钟
Theme 2 Lecture 3 Quiz10分钟
Theme 2 Lecture 4 Quiz10分钟
Theme 2 Lecture 5 Quiz10分钟
Theme 2 Lecture 6 Quiz10分钟
周
3完成时间为 3 小时
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 （总计 71 分钟）, 9 个测验
9 个视频
Registration15分钟
fslr: System Requirements8分钟
Bias Field Correction Using fslr3分钟
Brain Extraction using fslr5分钟
Image Registration Using fslr5分钟
Installing ANTsR5分钟
Basic Data Manipulation with ANTsR4分钟
Pre-Processing with ANTSR7分钟
9 个练习
Theme 3 Quiz 110分钟
Theme 3 Quiz 210分钟
Theme 3 Quiz 312分钟
Theme 3 Quiz 410分钟
Theme 3 Quiz 510分钟
Theme 3 Quiz 610分钟
Theme 3 Quiz 710分钟
Theme 3 Quiz 810分钟
Theme 3 Quiz 910分钟
周
4完成时间为 3 小时
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 （总计 101 分钟）, 1 个阅读材料, 10 个测验
11 个视频
Co-Registration using fslr9分钟
Co-Registration using ANTsR9分钟
Wrapper Functions for Processing Pipelines8分钟
Across-Visit Co-Registration of T1 Images6分钟
Rigid Registration to a Template8分钟
Affine Registration of T1 to Template4分钟
Nonlinear Registration of T1 to Template6分钟
Getting ROI Anatomic Information from Non-Linear Registration12分钟
Tissue-Level Segmentation7分钟
Papayar: Interactively Viewing Images in R22分钟
1 个阅读材料
Papayar Script10分钟
10 个练习
Theme 4 Quiz 110分钟
Theme 4 Quiz 210分钟
Theme 4 Quiz 36分钟
Theme 4 Quiz 410分钟
Theme 4 Quiz 510分钟
Theme 4 Quiz 610分钟
Theme 4 Quiz 710分钟
Theme 4 Quiz 810分钟
Theme 4 Quiz 910分钟
Theme 4 Quiz 1010分钟
4.6
35 个审阅25%
完成这些课程后已开始新的职业生涯
11%
通过此课程获得实实在在的工作福利
来自Introduction to Neurohacking In R的热门评论
I like that this course goes through most necessary steps, my only suggest would be to have one additional week where you go through everything all together, and then do some simple group analysis.
Thank you for the wonderful course. Especially useful when the team explains every new line of code. As a current undergraduate and aspiring neuroscience researcher, this is tremendously helpful.
讲师
Dr. Elizabeth Sweeney
Rice Academy Postdoctoral FellowBiostatistics
Ciprian M. Crainiceanu
ProfessorBiostatstics
John Muschelli III
Assistant ScientistBiostatistics
关于 约翰霍普金斯大学
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.
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