Checking Your Output

MRIQC writes one self-contained HTML report per scan into your output directory. Open them in a browser on the SCC:

[scc4]$ module load firefox
[scc4]$ firefox --new-window /projectnb/your_project/bids/derivatives/mriqc/sub-001_task-checkerboard_bold.html &

Anatomical Reports

Step 1:

Step 2:

Functional Reports

Step 1:

Step 2:

Group Reports

Image Quality Metrics

Metric	Modality	What it measures	What to watch for