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lilykw
New Member
USA
19 Posts |
 Posted - Aug 11 2006 : 10:58:38 AM
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Hi all,
I've now used UNC's Imagine program and the matlab EM Segmentation script on my brains, but I don't know how to convert from the segmentation maps (in .hdr format for Imagine, in .bxh format for ems_segment_script_new) to volume. I'm very matlab ignorant, so if anyone could direct me how to extract white matter and grey matter volumes from the files that are output from either of these programs, I'd really really appreciate it.
Thanks,
Lily |
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josh.bizzell
BIAC Staff
USA
118 Posts |
Posted - Aug 14 2006 : 09:43:52 AM
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Lily,
There are multiple ways to do this, but probably the easiest is to use SnAP/Iris. What you'll need to do is load your anatomical image and then load your segmentation maps as an overlay. (This is also useful to check the quality of the segmentation).
Next, go to "Save Data" and pick "Volumes and Statistics". Specify a name for your output file (.txt). This file will have the volume statistics (count and volume in cubic millimeters) for each of your "labels", as well as the mean/standard deviation of the intensities in each "label".
-Josh |
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ems_segment_script_new or Imagine
