matter changes.
Thank you for directing me to Koen Van Leemput. Take care,
-Victor
-Original Message-
From: Bruce Fischl [mailto:fis...@nmr.mgh.harvard.edu]
Sent: Wednesday, May 12, 2010 5:06 PM
To: Laluz, Victor
Cc: Nick Schmansky; freesurfer@nmr.mgh.harvard.edu; Koen Van Leemput
Subject
Hello guys,
I am curious as to how white matter hypointensities (on T1 mprage) are measured
automatically for the aseg.stats file in FS? A group at UCSF is interested in
using this measure for a study and would like to have a nice explanation or
citation to describe how it is generated.
I have
Hello Freesurfer-ers,
I tried to look up a reference for the delineation of the insula label in the
standard parcellation and came up empty. Does anyone have a published article,
or some form of citation that explains how Freesurfer defines the insula? This
is in reference to the insula label s
PM
To: Laluz, Victor
Cc: Bruce Fischl; freesurfer@nmr.mgh.harvard.edu
Subject: Re: Replicating qdec analysis with more than 2 continuous variables
you have a couple options:
1) assuming you are using 64b linux, you can download a new version of
qdec which supports selecting 'nuisance' variable
Hello Freesurfer folks,
I hope this question is simple to answer: Is there any way to do a
surface-based group analysis, a-la qdec, without the limitation of 2 continuous
variables?
My goal is to analyze a thickness relationship with continuous variable X,
which I have so far analyzed controll
Hello,
Throughout most of Freesurfer's version history, I have noticed this problem
pop up every 50 or so cases I do:
I will have a pretty well-processed surface but with some inaccuracies in the
WM surface, I will put control points down to correct it, and reprocess with
autorecon2-cp as usua
Hello,
I'm interested in subdividing some of the standard atlas regions into anterior
and posterior divisions. Besides creating individual labels for each of the
labels, is it possible to create a generic anterior label for multiple
subregions (encompassing an entire lobe at a time), then quick
Hello,
When trying to do a single-subject vs. group qdec study with covariates,
I always get errors, such as:
ERROR: matrix is ill-conditioned or badly scaled, condno = 1e+08
Possible problem with experimental design:
Check for duplicate entries and/or lack of range of
continuous variabl
The body of my email was lost because of the attachments: here it is
again for those who are curious. Sorry about that, I didn't know a text
file attachment would do that.
Not sure if this bug has been mentioned before, but there is a bug with
using aparcstats2table for the aparc.a2005s parcell
Hello,
Not sure if this bug has been mentioned before, but there is a bug with
using aparcstats2table for the aparc.a2005s parcellation map. If some of
the subjects in the group have missing values of a certain type,
aparcstats2table fails to designate a 0 for them. So for instance, it's
often
lto:[EMAIL PROTECTED]
Sent: Monday, October 20, 2008 2:30 PM
To: Laluz, Victor
Cc: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] Recurring issue with poor gray/white
distinction - easy fix?
Hi Victor,
have you tried messing with the segmentation parameters to mri_segment
and mris_make_surf
Hello everyone,
I have many scans taken just under 10 years ago on a 1.5T Siemens
scanner. For some reason, the images from this time period have
consistent problems with gray matter / white matter contrast;
consistently, Freesurfer measures almost all cerebral brain tissue as
being white. I ha
Hello,
Occasionally I run into a problem with lower quality, noisy T1 images
(1.5mmx1mmx1mm) where almost all of the tissue is classified as white
matter. Upon inspecting these images (attached), I can understand why it
would make this mistake; the white-gray matter border in them is very
diffi
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