Hi Gari
sorry, I'm a bit confused. Are you using the individual subject estimates
of 44 and 45 generated by FreeSurfer, or mapping them from MNI space? In
either case you can get overlap unless you pick the most probably label at
each point.
cheers
Bruce
On Mon, 6 Aug 2012, Garikoitz Lerma
Hi Colin
have you tried mri_convert? We did support bshort as a format (such as it
is!), although it hasn't gotten much use for years. Try something like:
mri_convert file.bshort file.nii
cheers
Bruce
On Sun, 5 Aug 2012,
Colin Reveley wrote:
also -
I'm assisting someone with a dti
Hi Meng, the first row is what you want. The second row tests for an
interaction between diagnosis, genotype, and age.
doug
On 08/04/2012 10:23 PM, Meng Li wrote:
Hi Freesurfers,
My experimental design includes 3 discrete factors and 1 continuous
variables:
Discrete factors: diagnosis
Or try
mri_convert file.bhdr file.nii
On 08/06/2012 09:30 AM, Bruce Fischl wrote:
Hi Colin
have you tried mri_convert? We did support bshort as a format (such as
it is!), although it hasn't gotten much use for years. Try something
like:
mri_convert file.bshort file.nii
cheers
Bruce
Hi Bruce,
thanks for your answer.
I am mapping a volume ROI (BA45) from SPM in MNI 152 space to fsaverage (the
result is the red ROI). The problem is that:
- when I load the BA45.label from FS in order to compare, they are not quite
similar. My main problem is to know if the differences are
Hi,
I am currently analyzing some retinotopy data.
For the polar angle stimulus we had both clockwise and counterclockwise stimuli.
Both of them started at the top of the screen (12 o'clock), each run includes 4
full cycles and ends with the last wedge slightly before/after 12o'clock.
We have
Hi Gari
they overlap as the labels represent every location that could possibly
be in either label. Unless we could predict them perfectly they have to
overlap, since they share a border. With 5.2 we will include different
default thresholds, but at the moment you have to do it yourself. You
what is it that is noisy? The angle map or the p-value map? Can you send
pics?
doug
On 08/06/2012 12:41 PM, Thomas Janssens wrote:
Hi,
I am currently analyzing some retinotopy data.
For the polar angle stimulus we had both clockwise and counterclockwise
stimuli.
Both of them started at
Gari, can you check whether you have ?h.BA.annot in your subject/labels
folder? this is an annotation of all the BA labels. They are
non-overlapping; overlaps are resolved by the one with the most
probability. I can't remember whether this made it into 5.1 or not.
doug
On 08/06/2012 01:18 PM,
Hello,
I'm conducting a longitudinal analysis and encounter an error when
running the long_mris_slopes command (this is contained in the online
tutorial:
http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/LongitudinalTutorial).
The error that arises within a minute is ERROR -10 : mris_calc
I see what you mean. Is it possible that they are the same direction?
When you look at the angle values when running them individually, are
they the same or opposite sign? Are you sure that the par file lists one
as positive and one as negative?
doug
On 08/06/2012 02:56 PM, Thomas Janssens
When using the norm.mgz, what is the best way to evaluate the accuracy of the
thalamus labeling? If lateral thalamus has low contrast with WM, how can we
tell where its borders should be? Or is it best to assume that the automatic
segmentation has done sufficiently well?
Jordan Pierce
Hi, all, anyone knows that if the ICV in the aseg.stats means the whole volumes
inside the skull or the total volumes of GM and WM? Does it include the CSF
between the skull and the cortex? Thanks.
Natalie
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