not as is, sorry
On Fri, 23 Dec 2005, Fornito, Alexander wrote:
So, read_label could be used to load the label in, and then that could be used
to pull out the relevant vertices from the .thickness and .sulc files?
Also, is there a straightforward way of converting the final column in the
.sulc file into mm (as in mm sulcal depth)?
Alex Fornito
M.Psych/PhD (clin. neuro.) candidate
Melbourne Neuropsychiatry Centre and Department of Psychology
The University of Melbourne
[EMAIL PROTECTED]
-----Original Message-----
From: Bruce Fischl [mailto:[EMAIL PROTECTED]
Sent: Fri 23/12/2005 11:29 AM
To: Fornito, Alexander
Cc: [email protected]
Subject: RE: [Freesurfer] Sulcal depth
I think they are volume RAS coords, with 0,0,0 at the center of the volume.
I think we distribute a read_label.m or load_label.m that can read it into
matlab.
On Fri, 23 Dec 2005, Fornito, Alexander wrote:
Famous last words, but seems simple enough. Will give it a try. Would
just like to clarify what the columns represent in curvature files after
converting to ascii: The first volumn is the vertx id. The next three
columns are the xyz co-ords. The rightmost column is the actual
'curvature value', e.g., in thickness file, it's the thickness associated
with that vertex, in the sulc file, it's the integrated the distnace the
node moves during inflation, etc.. In which case, for extracting sulcal
and gyral regions separately, I'd need to split vertices based on the
sign of the final column in the sulc file.
Another question: are the xyz coords talairach or native coords? They're
not surface coords are they? I would've thought surface coords would be
in 2D (although I have been known to get it completely wrong form time to
time!).
Alex Fornito
M.Psych/PhD (clin. neuro.) candidate
Melbourne Neuropsychiatry Centre and Department of Psychology
The University of Melbourne
[EMAIL PROTECTED]
-----Original Message-----
From: Bruce Fischl [mailto:[EMAIL PROTECTED]
Sent: Fri 23/12/2005 10:36 AM
To: Fornito, Alexander
Cc: [email protected]
Subject: RE: [Freesurfer] Sulcal depth
sure, just sum them separately. Would be easy to do in matlab (we did it
in our PNAS thickness paper)
On Fri, 23 Dec 2005, Fornito, Alexander wrote:
What it require a lot of work? What would be the odds of somehting like that
happening in the near future? :)
On another issue, if the .sulc file encodes dinsitguises between sulcal and
gyral regions with positive and negative signs, is it possible to extract the
thickness of sulcal and gyral regions separately? I remember seeing a posting
about this some time ago, bu can't seem to find it again.
Thanks again.
Alex Fornito
M.Psych/PhD (clin. neuro.) candidate
Melbourne Neuropsychiatry Centre and Department of Psychology
The University of Melbourne
[EMAIL PROTECTED]
-----Original Message-----
From: Bruce Fischl [mailto:[EMAIL PROTECTED]
Sent: Fri 23/12/2005 9:30 AM
To: Fornito, Alexander
Cc: [email protected]
Subject: Re: [Freesurfer] Sulcal depth
not all that easily, although I guess we could write out something from
mris_inflate that has the units of mm.
On Fri, 23 Dec 2005, Fornito, Alexander wrote:
Hi all,
From my understanding, ?h.sulc can be used to measure sulcal depth.
I'm wandering if it is possible to use this to get the depth of a sulcus within
an ROI, and if so, how you would extract the relevant measures, i.e.., would it
be obtainable through mris_anatomical_stats?
Thanks,
Alex
Alex Fornito
M.Psych/PhD (clin. neuro.) candidate
Melbourne Neuropsychiatry Centre and Department of Psychology
The University of Melbourne
[EMAIL PROTECTED]
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