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
課程信息
19,372 次近期查看
學習Course的學生是
- Biostatisticians
- Medical Doctors
- Researchers
- Machine Learning Engineers
- Research Assistants
您將獲得的技能
Image ProcessingBrainR ProgrammingNeurology
教學大綱 - 您將從這門課程中學到什麼
週
1完成時間為 1 小時
Introduction
3 個視頻 （總計 30 分鐘）, 1 個閱讀材料, 1 個測驗
1 個閱讀材料
Syllabus10分鐘
1 個練習
Theme 1 Quiz16分鐘
週
2完成時間為 2 小時
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 個視頻 （總計 74 分鐘）, 6 個測驗
7 個視頻
The NIfTI Format9分鐘
Basic Visualization 19分鐘
Basic Visualization 29分鐘
Basic Data Manipulation9分鐘
Transformations and Smoothing14分鐘
Basic MRI Contrasts9分鐘
6 個練習
Theme 2 Lecture 1 Quiz10分鐘
Theme 2 Lecture 2 Quiz10分鐘
Theme 2 Lecture 3 Quiz10分鐘
Theme 2 Lecture 4 Quiz10分鐘
Theme 2 Lecture 5 Quiz10分鐘
Theme 2 Lecture 6 Quiz10分鐘
週
3完成時間為 3 小時
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 個視頻 （總計 71 分鐘）, 9 個測驗
9 個視頻
Registration15分鐘
fslr: System Requirements8分鐘
Bias Field Correction Using fslr3分鐘
Brain Extraction using fslr5分鐘
Image Registration Using fslr5分鐘
Installing ANTsR5分鐘
Basic Data Manipulation with ANTsR4分鐘
Pre-Processing with ANTSR7分鐘
9 個練習
Theme 3 Quiz 110分鐘
Theme 3 Quiz 210分鐘
Theme 3 Quiz 312分鐘
Theme 3 Quiz 410分鐘
Theme 3 Quiz 510分鐘
Theme 3 Quiz 610分鐘
Theme 3 Quiz 710分鐘
Theme 3 Quiz 810分鐘
Theme 3 Quiz 910分鐘
週
4完成時間為 3 小時
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 個視頻 （總計 101 分鐘）, 1 個閱讀材料, 10 個測驗
11 個視頻
Co-Registration using fslr9分鐘
Co-Registration using ANTsR9分鐘
Wrapper Functions for Processing Pipelines8分鐘
Across-Visit Co-Registration of T1 Images6分鐘
Rigid Registration to a Template8分鐘
Affine Registration of T1 to Template4分鐘
Nonlinear Registration of T1 to Template6分鐘
Getting ROI Anatomic Information from Non-Linear Registration12分鐘
Tissue-Level Segmentation7分鐘
Papayar: Interactively Viewing Images in R22分鐘
1 個閱讀材料
Papayar Script10分鐘
10 個練習
Theme 4 Quiz 110分鐘
Theme 4 Quiz 210分鐘
Theme 4 Quiz 36分鐘
Theme 4 Quiz 410分鐘
Theme 4 Quiz 510分鐘
Theme 4 Quiz 610分鐘
Theme 4 Quiz 710分鐘
Theme 4 Quiz 810分鐘
Theme 4 Quiz 910分鐘
Theme 4 Quiz 1010分鐘
4.6
35 個審閱25%
完成這些課程後已開始新的職業生涯
11%
通過此課程獲得實實在在的工作福利
來自Introduction to Neurohacking In R的熱門評論
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.
講師
Dr. Elizabeth Sweeney
Rice Academy Postdoctoral FellowBiostatistics
Ciprian M. Crainiceanu
ProfessorBiostatstics
John Muschelli III
Assistant ScientistBiostatistics
關於 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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