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.
Offered By
Introduction to Neurohacking In R
Johns Hopkins UniversityAbout this Course
22,098 recent views
Learner Career Outcomes
25%
started a new career after completing these courses
11%
got a tangible career benefit from this course
Shareable Certificate
Earn a Certificate upon completion
100% online
Start instantly and learn at your own schedule.
Flexible deadlines
Reset deadlines in accordance to your schedule.
Intermediate Level
Approx. 9 hours to complete
English
Subtitles: English
Skills you will gain
Image ProcessingBrainR ProgrammingNeurology
Learner Career Outcomes
25%
started a new career after completing these courses
11%
got a tangible career benefit from this course
Shareable Certificate
Earn a Certificate upon completion
100% online
Start instantly and learn at your own schedule.
Flexible deadlines
Reset deadlines in accordance to your schedule.
Intermediate Level
Approx. 9 hours to complete
English
Subtitles: English
Offered by
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.
Syllabus - What you will learn from this course
1 hour to complete
Introduction
1 hour to complete
3 videos (Total 30 min), 1 reading, 1 quiz
1 reading
Syllabus10m
1 practice exercise
Theme 1 Quiz16m
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.
2 hours to complete
7 videos (Total 74 min)
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
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.
3 hours to complete
9 videos (Total 71 min)
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
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.
3 hours to complete
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
Frequently Asked Questions
When will I have access to the lectures and assignments?
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.
What will I get if I purchase the Certificate?
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.
What is the refund policy?
You will be eligible for a full refund until two weeks after your payment date, or (for courses that have just launched) until two weeks after the first session of the course begins, whichever is later. You cannot receive a refund once you’ve earned a Course Certificate, even if you complete the course within the two-week refund period. See our full refund policy.
Is financial aid available?
Yes, Coursera provides financial aid to learners who cannot afford the fee. Apply for it by clicking on the Financial Aid link beneath the "Enroll" button on the left. You’ll be prompted to complete an application and will be notified if you are approved. Learn more.
More questions? Visit the Learner Help Center.
