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request: whole brain measurements #108
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The reason Mindboggle breaks brain images down into structures such as labeled regions is to compute structure-based shape measures such as curvature, depth, and thickness, rather than across an entire hemisphere. Which measurements were you hoping to aggregate across labeled regions for each hemisphere? |
Depth and sulcal/fundi surface area (of un- and labeled structures) and
corrected as per compute.py.
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Total surface area across all sulci Average the mean depth per sulcus across all sulci Mean depth across all labels Mean depth across all sulci Does this help? |
If you have processed many brains through mindboggle and want to do a computation on a shape measure for each of the brains, you can create a table concatenating the desired column across all the brains, using the select_column_from_mindboggle_tables() function in tables.py:
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Addendum: I neglected to mention above that for area correction when computing Mean depth across all labels or Mean depth across all sulci you can use the corresponding values in the area column of the same vertices.csv file. |
Hi,
FreeSurfer stats output includes whole brain/hemispheric averages or total, depending the measurement. Could this be added to mindboggle output tables as well?
Thanks,
-joost
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