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<div class="elementToProof"><span style="font-family: Calibri, Arial, Helvetica, sans-serif; font-size: 12pt; color: rgb(0, 0, 0); background-color: rgb(255, 255, 255);" class="elementToProof">Hi all, </span></div>
<div class="elementToProof"><span style="font-family: Calibri, Arial, Helvetica, sans-serif; font-size: 12pt; color: rgb(0, 0, 0); background-color: rgb(255, 255, 255);" class="elementToProof"><br>
</span></div>
<div class="elementToProof"><span style="font-family: Calibri, Arial, Helvetica, sans-serif; font-size: 12pt; color: rgb(0, 0, 0); background-color: rgb(255, 255, 255);" class="elementToProof">I've noticed that in many (almost all) of the scans I've put through
the charm pipeline have returned really nice surface segmentations of the scalp, bone, WM, etc. However, the grey matter surface typically appears very poor (loses detail in sulci/gyri).</span></div>
<div class="elementToProof"><span style="font-family: Calibri, Arial, Helvetica, sans-serif; font-size: 12pt; color: rgb(0, 0, 0); background-color: rgb(255, 255, 255);" class="elementToProof"><br>
</span></div>
<div class="elementToProof"><span style="font-family: Calibri, Arial, Helvetica, sans-serif; font-size: 12pt; color: rgb(0, 0, 0); background-color: rgb(255, 255, 255);" class="elementToProof">I've tried headreco and charm for 3 separate anatomical scan acquisitions
and got the same result consistently (photo attached). </span></div>
<div class="elementToProof"><span style="font-family: Calibri, Arial, Helvetica, sans-serif; font-size: 12pt; color: rgb(0, 0, 0); background-color: rgb(255, 255, 255);" class="elementToProof"><br>
</span></div>
<div class="elementToProof"><span style="font-family: Calibri, Arial, Helvetica, sans-serif; font-size: 12pt; color: rgb(0, 0, 0); background-color: rgb(255, 255, 255);" class="elementToProof">I suspect something in the despiking/cleaning tetrahedra step in
charm may be causing this, but I'm not sure. Any pointers or things to try for troubleshooting? </span></div>
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<div class="elementToProof"><span style="font-family: Calibri, Arial, Helvetica, sans-serif; font-size: 12pt; color: rgb(0, 0, 0); background-color: rgb(255, 255, 255);" class="elementToProof">Best,</span></div>
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<div><span style="font-size:12pt;font-family:Calibri, Arial, Helvetica, sans-serif;margin:0px;text-align:start"><span style="font-size:10pt;margin:0px">Dan McCalley, Ph.D.</span></span>
<div style="font-size:12pt;font-family:Calibri, Arial, Helvetica, sans-serif;margin:0px;text-align:start">
<span style="font-size:10pt;margin:0px">Postdoctoral Scholar, Padula BRAVE lab</span></div>
<div style="font-size:12pt;font-family:Calibri, Arial, Helvetica, sans-serif;margin:0px;text-align:start">
<span style="font-size:10pt;margin:0px">Stanford University</span></div>
<div style="font-size:12pt;font-family:Calibri, Arial, Helvetica, sans-serif;margin:0px;text-align:start">
<span style="font-size:10pt;margin:0px">School of Medicine, Psychiatry and Behavioral Sciences </span></div>
<span style="font-size:12pt;font-family:Calibri, Arial, Helvetica, sans-serif;margin:0px;text-align:start"><span style="font-size:10pt;margin:0px">(he/him)</span></span></div>
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