Swap slices and swap volumes

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Background

Both Swap Slices and Swap Volumes allow the user to select slices and volumes and to insert selected slices\volumes into different locations in the image.

Why swap slices and volumes?

In DTI scanning B0 volume (the volume made without a b pulse) is used for creating a whole-brain mask, which is used to determine which voxels to include into analysis. For most of MRI scanners B0 is either the fist or the last recorded volume, but some scanners put B0 is some different places. The easiest way to move B0 volume to the beginning or to the end of the image is by using the Swap Volumes tool.

The Swap Slices tool is helpful when the user needs to remove a bunch of adjacent slices from the beginning or from the end of image (or both). For example in brain MRI, researches are interested mostly in analyzing internal slices. The same applies to microscopy where first and last slices are usually out of focus.

Swap Slices

The Swap Slices tool is available via Utilities > 3D Slice Tools > Swap Slice menu. The tool is available for use in both 3D and 4 D images.

Comment

Help needs to be created so that user can understand the interface, the scripting parameters, and the result images.