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Hi Stephen,
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<div class="">Please note that FT now has full support for SPM12, both using the old-style segmentation, and the new one (the latter yielding 6 tissue types).</div>
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<div class="">Best,</div>
<div class="">Jan-Mathijs</div>
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<div class="">On 20 Sep 2017, at 17:03, Stephen Whitmarsh <<a href="mailto:stephen.whitmarsh@gmail.com" class="">stephen.whitmarsh@gmail.com</a>> wrote:</div>
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<div dir="ltr" class=""><span style="font-size:12.8px" class="">Dear all,</span>
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<div style="font-size:12.8px" class="">I having some problems in normalizing MRIs for my study. Some have improper segmentation for which changing individual brain/scalp thresholds works in many cases but not all, e.g. when the scalp 'bleeds' into some noise
outside of the head. Also, changing parameters in spm8 for normalization, such as number of iterations (directly in in spm_normalize, since FT does not pass these parameters) <span style="font-size:12.8px" class="">improves the transformation.</span></div>
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<div style="font-size:12.8px" class="">However, some scans I cannot deal with, either because they have noise from outsides of the head 'bleed' onto the scalp, thereby preventing optimal scalp-segmentation and thereby normalization. Others have an inappropriate
contrast MRI sequence.</div>
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<div style="font-size:12.8px" class="">Some fMRI researchers advised me to use SPM12, because of its improved preprocessing procedures. However, it does not seem supported in FT yet. Does anyone have experience with this, and can perhaps share how they extracted
the transformation matrix from the resulting nifti's? </div>
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<div style="font-size:12.8px" class="">Thanks,</div>
<div style="font-size:12.8px" class="">Stephen</div>
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