COL786

Personal repository for the assignments and projects pertaining to COL786 - course for advanced functional brain imaging.

• FSL can be installed with the fslinstaller.py file and following the steps as mentioned in this link.

Assignments

Asssignment 1 - Getting comfortable with the FSL software, identifying landmarks and special regions in the human brain and visualising the time series with preprocessed image and protocol design analysis.

Asssignment 2 - Learn to how to use FSL software for preprocessing and GLM modelling for single subject analysis. Do linear registration to the standard atlas and recognise brain regions for different tasks using contrast.

Asssignment 3 - Learn to how to use FSL software for preprocessing and GLM modelling for group average analysis. Do linear registration to the standard atlas and recognise brain regions for different tasks using contrast.

Asssignment 4 - Make a command line based preprocessing tool which performs slice time correction, temporal filtering and spatial smoothing of the input file (NIFTI format).

Asssignment 5 - Develop a command-line-based tool for GLM Analysis of fMRI data. The tool has two parts. The first part aims to develop a GLM tool for single subject analysis. The second part aims to develop a GLM tool for group analysis.

Homeworks

This is mini-compilation of the most insightful TED talks and discovery papers.

Project

This contains the resources used for the project. The project title - Functional Connectivity using Probabilistic Graphical Models as part of the Human Connectome Project.

Important Materials

This contains important reference materials for the course. MRI physics, Gaussian distributions, Estimation theory, fMRI principles, etc.