Visual Report: Functional Section

There is a separate Functional section for each fMRI run (but they are all contained in a single document)

This includes a summary that describes the functional data and the processing applied.
The collected confounds are listed for each run. These are available in a tab-separated values file in the func directory. Many of the confounds are principal components, but the standard head motion parameters, framewise displacement, and other measures are also listed and available as text in the table.
If susceptibility correction was run, then a section with that name is listed showing you pre and post-correction.

Caution!

Look carefully at the distortion corrections to ensure the they look better: They should fill in the red outline and not introduce horns or holes into the subjects' brains. They should make the eyeballs more spherical. Sometimes, one or more subjects do not get "corrected" appropriately. Rerunning them or using a different correction method may help.

The next section displays registration quality.
There is also a section displaying the masks used to extract principal components and the variance explained by those components.
One of the most interesting and immediately useful sections is the BOLD summary which is similar to the MRIQC output. Measures of global signal change and movement complement the carpet plot to help reveal problematic signal changes. The carpet plot legend is different than MRIQC's output, and also differs depending on whether you generated cifti-output.
Finally, to help with analysis decisions, the report provides two displays of correlations among confounds.

Watch this ~6.25-minute video clip

fMRIPrep: Output (~60-minutes)