Overview
Topics
- π‘ Introduction to the Brain Imaging Data Structure (BIDS)
- π‘ Transform your DICOM MRI data to BIDS using HeuDiConv
- π‘ Pseudonymize your MRI data by removing facial structure from MRI images using PyDeface
- π‘ Inspect the quality of your MRI data using MRIQC
- π‘ Preprocess fMRI data using fMRIPrep
The Brain Imaging Data Structure (BIDS) is a simple and intuitive way to organize and describe data. HeuDiConv is a flexible DICOM converter for organizing brain imaging data into structured directory layouts. PyDeface is a tool to remove facial structure from MRI images. MRIQC extracts image quality metrics from structural (T1w and T2w) and functional MRI (magnetic resonance imaging) data. fMRIPrep is a functional magnetic resonance imaging (fMRI) data preprocessing pipeline.
Target audience
Students or researchers at any level.
Prerequisites
Beneficial, but not required:
- Basic Python or Bash skills
- Bring your own MRI dataset
- Optional: Access to a high-performance computing (HPC) cluster
Key learning objectives
At the end of this training, participants will be able to
- Understand the organization and benefits of BIDS
- Transform their MRI DICOM data to BIDS
- Remove facial features from MRI images using PyDeface
- Evaluate the quality of MRI data using MRIQC
- Optional: Preprocess their fMRI data using fMRIPrep
Past events
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