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<div style="direction: ltr;font-family: Tahoma;color: #000000;font-size: 10pt;">Good morning, I need a suggestion!
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<div>I have to do PICo probabilistic tractography on a DTI reconstructed data-set. Seeds are placed in a ROI involving the brain stem. I run the command track and then procstreamlines as reported below:</div>
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<div>track -inputfile picopdf.Bdouble -inputmodel pico -header DTI.nii.gz -seedfile normROI83.nii.gz -iterations 5000 - curvethresh 90 -bgmask brain_mask.nii.gz -outputfile tracks83.Bfloat</div>
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<div>procstreamlines -inputfile tracks83.Bfloat -outputacm -mintractlength 8 -seedfile normROI83.nii.gz -iterations 5000 -resamplestepsize 0.25 -outputroot probmapROI83</div>
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<div>The resulting probability map is not so good in my opinion, because I expect that fibers start from the brain stem and they grow up in a fan-shaped way. Instead in my case the fibers go up only in the two main directions.</div>
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<div>What do you think about it? Should I change some parameters running these commands? Or should I change something in the look-up table? I choose a Bingham pdf function, as suggested on the man page of dtlutgen. </div>
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<div>Waiting for your feedback,</div>
<div>I thank you for your helpfulness,</div>
<div>Marina!</div>
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