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<HTML><TITLE>FDT - FMRIB's Diffusion Toolbox - User Guide</TITLE><BODY BACKGROUND="fdt_images/fsl-bg.jpg">
<p><h3>Eddy Current Correction</h3>
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Eddy currents in the gradient coils induce (approximate) stretches and shears
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in the diffusion weighted images. These distortions are different for
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different gradient directions. Eddy Current Correction corrects for these
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distortions, and for simple head motion, using affine registration to a
reference volume.
<p>To call the FDT GUI, either run <b>Fdt</b>, or run <b>fsl</b> and press the
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<b>FDT</b> button.  Use the top left drop down menu to select <b>Eddy current correction</b>.
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<p><b>Diffusion weighted data:</b> Use the browse button to select
your diffusion weighted dataset (a 4D image).
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<br><b>Corrected output data:</b> Use the browse button to specify a filename for
the corrected 4D dataset.
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<br><b>Reference volume:</b> (default 0). Set the volume number for the reference volume
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that will be used as a target to register all other volumes to. <br><br>
<b>command line utility</b><br>
 eddy_correct &#60;4dinput&#62; &#60;4doutput&#62; &#60;reference_no&#62;