Hi, Krista.

I'm not sure I know what you mean by "height" here, but the distance between two points is easy to calculate. If you can identify the voxels you're interested in in fslview, it will report their positions in a millimeter space. So, distance is just:

d = sqrt( (x2 - x1)^2 + (y2-y1)^2 + (z2 - z1)^2 )

Math to the rescue!

hth,

Paul

On Thu, Nov 8, 2012 at 2:02 PM, krista kelly <[log in to unmask]> wrote:

Hi all,

Just wanted to resend this as I have not yet gotten an answer. If anyone can help, I'd greatly appreciate it!!!

I am looking to see if there is a way in FSL to manually calculate the height of the LGN from proton density scans. I would try to use OSIRIX to do this, but the image I have is a .nii that was created from a series of 40 proton density scans that were averaged together and OSIRIX only takes the raw dicom files. Does anyone know how to calculate height in FSL, preferably by drawing a line from the apex of the LGN to the base? If not, are there any other programs I can use?

Thanks!
Krista