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Commit 4a86787e authored by Stephen Smith's avatar Stephen Smith
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...@@ -22,7 +22,7 @@ That directory must contain the following files: ...@@ -22,7 +22,7 @@ That directory must contain the following files:
include diffusion-weighted volumes and volume(s) with no diffusion weighting.</li> include diffusion-weighted volumes and volume(s) with no diffusion weighting.</li>
<li><b>nodif</b>: 3D volume with no diffusion weighting</li> <li><b>nodif</b>: 3D volume with no diffusion weighting</li>
<li><b>nodif_brain_mask</b>: 3D binary brain mask volume derived <li><b>nodif_brain_mask</b>: 3D binary brain mask volume derived
from running <a href="http:www.fmrib.ox.ac.uk/fsl/bet/index.html" target="_top">bet</a> on nodif</li> from running <a href="../bet2/index.html" target="_top">bet</a> on nodif</li>
<li><b>bvecs</b>: A text file containing a list <li><b>bvecs</b>: A text file containing a list
of gradient directions applied during diffusion weighted volumes. The of gradient directions applied during diffusion weighted volumes. The
order of entries in this file must match the order of volumes in <b>data</b>. order of entries in this file must match the order of volumes in <b>data</b>.
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...@@ -12,7 +12,7 @@ directory, e.g., the space of a high resolution T1-weighted image of ...@@ -12,7 +12,7 @@ directory, e.g., the space of a high resolution T1-weighted image of
the same subject)</li> the same subject)</li>
<li>Standard space (by default, the MNI152 brain stored within $FSLDIR/etc/standard)</li></ul> <li>Standard space (by default, the MNI152 brain stored within $FSLDIR/etc/standard)</li></ul>
<p>Note that struct must have had <a href="../bet/index.html" target="_top">bet</a> applied. The nodif_brain image should be <p>Note that struct must have had <a href="../bet2/index.html" target="_top">bet</a> applied. The nodif_brain image should be
the brain extracted version of the nodif image that is automatically stored in the brain extracted version of the nodif image that is automatically stored in
the Bedpost directory. The user will the Bedpost directory. The user will
have to manually apply bet to this image after running bedpost and before have to manually apply bet to this image after running bedpost and before
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