Dear list,
I am brand new to FSL and am having trouble using the fslmaths -roi function. I have a number of
volumes with two regions of interest each, one on the right and one on the left. I need to extract
data from the left and right separately and would like to avoid manually erasing each one
separately. I understand that this function sets everything outside the designated region to 0, so
I want to select one hemisphere at a time. I thought I understood this but I can only seem to
generate empty volumes.
Here's the syntax:
fslmaths input -roi <xmin> <xsize> <ymin> <ysize> <zmin> <zsize> <tmin> <tsize> output
Here's an example of what I've tried:
fslmaths input -roi -75 75 -40 160 -40 130 0 1 output
specifying the left hemisphere and the entire y and z dimensions. I only have one volume, so tried
timepoint 0 with 1 timepoint as well as 1 and 1. I also tried decreasing the extent of the y and z
dimensions. Tried playing with the min and max of the viewer when viewing the resulting volume,
but it is truly empty. Tried the function with and without extensions on the input/output files...
What am I doing wrong? Any suggestions would be greatly appreciated.
Thank you,
Catherine
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Catherine Warrier, PhD
Research Assistant Professor, Knowles Fellow
Auditory Neuroscience Laboratory
Northwestern University
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