COPE Plugin v1.2.1

This is a brief introduction to the COPE (Correction based on Opposite Phase Encoding) plugin for EPI distortion correction.

Introduction

Due to the susceptibility artifact, echo planar imaging (EPI) data can be deformed. There are several approaches to alleviate the problem. One approach is to calculate and apply the pixelshift map from a fieldmap of the static magnetic field B0 to EPI data ([1], [2]); the anatabacus plugin in BrainVoyager can be used for this approach. Another approach is based on reverse phase encoded EPI datasets, where image registration is used to compose a shift/voxel displacement map. Examples are Andersson's approach in TOPUP [3] or Ruthotto's correction method in HySCO [4] and the current plugin [5].

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Usage
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Background information

Status of the plugin

This is a version of the plugin (v1.2) to correct EPI images using reverse phase encoded data sets. Please consult the BrainVoyager support site for updates.

This plugin version was tested on BrainVoyager 22.2. It might or might not work on previous versions.

[1] Jezzard, P. & Balaban, B.S. (1995). Correction for Geometric Distortion in Echo Planar Images from B0 Field Variations. MRM, 34:65-73.
[2] Implementation of [1]: Breman, H., Peters, J., Ashburner, J., Weiskopf, N. and Goebel, R. (2009), NeuroImage 47, Supplement 1, S81. See also anatabacus.
[3] Andersson, J.L.R. and Skare, S. (2001) A Model-Based Method for Retrospective Correction of Geometric Distortions in Diffusion-Weighted EPI. NeuroImage 16, 177-199.
[4] Ruthotto, L, Mohammadi, S, Heck, C, Modersitzki, J, and Weiskopf, N. (2013) HySCO - Hyperelastic Susceptibility Artifact Correction of DTI in SPM. Presented at the Bildverarbeitung fuer die Medizin 2013.
[5] Breman, H. and Mulders, J.L.J. and Fritz, L. and Peters, J.C. and Pyles, J. and Eck, J. and Bastiani, M. and Roebroeck, A. and Ashburner, J. and Goebel, R. (2020) An image registration-based method for EPI distortion Correction based on Opposite Phase Encoding (COPE) 9th International Workshop on Biomedical Image Registration (WBIR). Lecture Notes in Computer Science 12120.

Latest update of this page: 12 December 2022