You just have to specify a second map as well:
This map does not actually contain negative values, but produced with
negative contrast.
overlay 0 1 <anatomy>.nii.gz <lower threshold> <upper threshold>
<activation_map>.nii.gz <lower threshold> <upper threshold>
<deactivation_map>.nii.gz <lower threshold> <upper threshold> < map>_overlay
Cheers,
Auer, Tibor M.D. Ph.D.
Biomedizinische NMR Forschungs GmbH
am Max-Planck Institut für Biophysikalische Chemie
Am Fassberg 11
37077 Göttingen
Germany
Phone/Work: +49-(0)551-201-1725
Phone/Home: +49-(0)551-387-0076
Mobile: +49-(0)176-8012-7921
Mail: [log in to unmask]
-----Original Message-----
From: FSL - FMRIB's Software Library [mailto:[log in to unmask]] On Behalf Of
Justin Vincent
Sent: Friday, August 10, 2012 9:06 PM
To: [log in to unmask]
Subject: Re: [FSL] using overlay / slicer
I have had the same question about "overlay" for some time.
How does one display both positive and negative results using overlay? Right
now, I only find options to display positive results. Typically, I run a
command such as this:
overlay 0 1 <anatomy>.nii.gz <lower threshold> <upper threshold>
<activation_map>.nii.gz <lower threshold> <upper threshold>
<activation_map>_overlay
This produces an overlay map in nifti format with only positive values (no
deactivations).
Is there are way to show positives and negatives with "overlay."
Alternatively, is there another programs that produces
activation/deactivation overlays?
best,
Justin Vincent
[log in to unmask]
|