Review interface¶

Review interface refers to the interactive components (mouse and keyboard shortcuts) to assist with the review process.

Common elements¶

Double or right click would zoom the data being displayed

to rate, click the appropriate button, or press the key corresponding to the capitalized letter for that option

This is usually the first later e.g. G for Good, s for Spikes, R for Review later

but can also be others (capitalized) if there is overlap with other words: M` for ``i'M tired

You can not advance to next sbuject/scan/unit without rating the current one. If you are not sure yet about how to rate it, or need additional details or discussion, simply use Review later option.

to advance to next subject, click Next button.

to quit the review temporarily, click Quit button or press Ctrl+Q keys.

Review interface - Freesurfer¶

double click any panel (MR slice or surf vis) to zoom it large. Single click anywhere to unzoom

to toggle the colored contour overlay, right click or press the key t. This works even when a slice is zoomed-in or not. Toggling the contour back and forth helps decide whether it follows the tissue boundaries accurately or not

slider changes the opacity of the contour overlay in all slices.

Review interface - Anatomical / T1w MRI¶

Double click to zoom in on any slice.

Double click the histogram to zoom the intensity distribution

keyboard shortcuts (capitalized letters in label) to rate artefacts

alt+s to show the saturated image

alt+b to show the background image

alt+t to show the image after trimming tails in intensity histogram

alt+o to show the original image

Review interface - Registration¶

keyboard shortcuts (capitalized letters in label) to rate the quality of alignment

Double click the histogram to zoom the distribution of voxel-wise differences

Click on the radio buttons to change the type of blending - Animate or Checkerboard or Edges or Color mix etc.

alt+1 to show only the first image

alt+2 to show only the second image

Double click to zoom in on any slice.

Review interface - Functional MRI¶

Right click to open a specific time point (also known as a frame)

Use the arrow keys to traverse in time (right/up keys to increase the frame, and left/down key to decrease it)

Right click again on slices to zoom them further full-window

Press alt+s to show the std. dev map (voxel-wise, over time)

Press the spacebar to go the next subject

Review interface - Diffusion MRI¶

Right click to open a specific gradient

Right click again on slices to zoom them further full-window

Use the arrow keys to traverse across different gradients (right/up keys to move forward to the next gradient, and left/down key to go backwards to the previous gradient)

Press alt+s to show the std. dev map (voxel-wise, across gradients)

Press alt+0 to show the b=0 volume

Press alt+n to flip back and forth between the first and last gradients

Press space to pause the animation through the gradients

Review interface - Defacing¶

Right click to open and zoom a given slice for easier review

Use the left and right arrow keys to traverse through the subjects

Press the following keys to switch to different modes: alt+b to show the defaced image alone, alt+o to show the original image alone and alt+m to show the default mixed overlay highlighting the part to be removed.