About this Course
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Flexible deadlines

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Intermediate Level

Approx. 12 hours to complete

Suggested: 4 weeks of study, 2-4 hours/week...

English

Subtitles: English

Skills you will gain

Image ProcessingBrainR ProgrammingNeurology

100% online

Start instantly and learn at your own schedule.

Flexible deadlines

Reset deadlines in accordance to your schedule.

Intermediate Level

Approx. 12 hours to complete

Suggested: 4 weeks of study, 2-4 hours/week...

English

Subtitles: English

Syllabus - What you will learn from this course

Week
1
1 hour to complete

Introduction

...
3 videos (Total 30 min), 1 reading, 1 quiz
3 videos
Introduction11m
Structural MRI and R12m
1 reading
Syllabus10m
1 practice exercise
Theme 1 Quiz16m
Week
2
2 hours to complete

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 videos (Total 74 min), 6 quizzes
7 videos
The NIfTI Format9m
Basic Visualization 19m
Basic Visualization 29m
Basic Data Manipulation9m
Transformations and Smoothing14m
Basic MRI Contrasts9m
6 practice exercises
Theme 2 Lecture 1 Quiz10m
Theme 2 Lecture 2 Quiz10m
Theme 2 Lecture 3 Quiz10m
Theme 2 Lecture 4 Quiz10m
Theme 2 Lecture 5 Quiz10m
Theme 2 Lecture 6 Quiz10m
Week
3
3 hours to complete

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 videos (Total 71 min), 9 quizzes
9 videos
Registration15m
fslr: System Requirements8m
Bias Field Correction Using fslr3m
Brain Extraction using fslr5m
Image Registration Using fslr5m
Installing ANTsR5m
Basic Data Manipulation with ANTsR4m
Pre-Processing with ANTSR7m
9 practice exercises
Theme 3 Quiz 110m
Theme 3 Quiz 210m
Theme 3 Quiz 312m
Theme 3 Quiz 410m
Theme 3 Quiz 510m
Theme 3 Quiz 610m
Theme 3 Quiz 710m
Theme 3 Quiz 810m
Theme 3 Quiz 910m
Week
4
3 hours to complete

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 videos (Total 101 min), 1 reading, 10 quizzes
11 videos
Co-Registration using fslr9m
Co-Registration using ANTsR9m
Wrapper Functions for Processing Pipelines8m
Across-Visit Co-Registration of T1 Images6m
Rigid Registration to a Template8m
Affine Registration of T1 to Template4m
Nonlinear Registration of T1 to Template6m
Getting ROI Anatomic Information from Non-Linear Registration12m
Tissue-Level Segmentation7m
Papayar: Interactively Viewing Images in R22m
1 reading
Papayar Script10m
10 practice exercises
Theme 4 Quiz 110m
Theme 4 Quiz 210m
Theme 4 Quiz 36m
Theme 4 Quiz 410m
Theme 4 Quiz 510m
Theme 4 Quiz 610m
Theme 4 Quiz 710m
Theme 4 Quiz 810m
Theme 4 Quiz 910m
Theme 4 Quiz 1010m
4.6
29 ReviewsChevron Right

33%

started a new career after completing these courses

12%

got a tangible career benefit from this course

Top reviews from Introduction to Neurohacking In R

By BRFeb 9th 2017

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.

By SJMay 8th 2019

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.

Instructors

Avatar

Dr. Elizabeth Sweeney

Rice Academy Postdoctoral Fellow
Biostatistics
Avatar

Ciprian M. Crainiceanu

Professor
Biostatstics
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John Muschelli III

Assistant Scientist
Biostatistics

About 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....

Frequently Asked Questions

  • Once you enroll for a Certificate, you’ll have access to all videos, quizzes, and programming assignments (if applicable). Peer review assignments can only be submitted and reviewed once your session has begun. If you choose to explore the course without purchasing, you may not be able to access certain assignments.

  • When you purchase a Certificate you get access to all course materials, including graded assignments. Upon completing the course, your electronic Certificate will be added to your Accomplishments page - from there, you can print your Certificate or add it to your LinkedIn profile. If you only want to read and view the course content, you can audit the course for free.

More questions? Visit the Learner Help Center.