Hello — I’m trying to extract quantitative T2 values for different brain segments. I’ve converted my T2 set of DICOMs to .mgz format using mri_convert and loaded them into freeview. >> mri_convert -it siemens_dicom -ot mgz T2_maps_Dir/slice_1_T2_map.dcm >> T2_in_mgz.mgz
After loading T2_in_mgz.mgz to Freeview the T2 maps seem to coincide very well with the segmentation maps (aseg+aparc-in-rawavg.mgz). My questions are: 1. Should I have applied some pre-registration operation on the T2 maps before loading them into freeview, or does the fact that they coincide with the segmentation maps mean that I don’t need to apply any registration? 2. How can I extract mean T2 values for different segments? (not the usual volume-per-segment) Much obliged! — Noam -- Noam Ben-Eliezer, PhD Adjunct Assistant Professor of Radiology Center for Biomedical-Imaging New-York University Medical School noam.ben-elie...@nyumc.org<mailto:noam.ben-elie...@nyumc.org>
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