Dear FS experts,
Could you explained me how to interpret results from the QA tools. Please
find attached the recon_checker summary log.
1) How to know there is a problem according to results below:
*checking subcortical label: Left-Cerebral-Exterior, 0 +/-*
*checking subcortical label:
Dear FS experts,
I tried to run the QA Tools on a subject with the following command:
*${QA_TOOLS}/recon_checker -s 207043_M0_2010-10-07 -outputFOF
${SUBJECTS_DIR}/FOF -gen-outputFOF -gen-asegLUT
${SUBJECTS_DIR}/AsegOutliers*
But I got all errors concerning the detection of Aseg outliers:
;gr...@nmr.mgh.harvard.edu>:
> Yes with MGPVC the voxel values are rescaled by the MG formula. Note
> that MG (and RBV) use GTM as a preprocessing step. If you average the MG
> output over an ROI, then it comes close to the GTM value.
>
> On 01/11/2016 02:39 PM, Matthieu Vanhoutte wrote:
&g
GMT+01:00 Douglas Greve <gr...@nmr.mgh.harvard.edu>:
> You'll see several files that begin with mgx:
> mgx.ctxgm.nii.gz - pvc'ed cortex gm only
> mgx.subctxgm.nii.gz - pvc'ed subcortical gm only
> mgx.gm.nii.gz - pvc'ed all gm
>
>
> On 12/18/15 6:08 AM, Matthieu Vanhout
Hello,
Does anybody have an idea ?
Thanks in advance !
Best regards,
Matthieu
2016-01-08 16:59 GMT+01:00 Matthieu Vanhoutte <matthieuvanhou...@gmail.com>:
> Dear FS's experts,
>
> Projecting volumic data onto native surface (brain mask:
> "Unknown_S_calcarine_ROI
mgx.gm.nii.gz - pvc'ed all gm
Best regards,
Matthieu
2016-01-11 18:20 GMT+01:00 Douglas N Greve <gr...@nmr.mgh.harvard.edu>:
>
> The pons intensity used to normalize has been PVC'ed. The file used is
> the input file.
>
>
> On 01/11/2016 04:04 AM, Matthieu Vanhoutte wrote:
> >
gx
> data (corrected with muller-gartner method). There is also a --rbv
> (region-based voxel-wise, Thomas 2012) option.
>
>
> On 01/11/2016 12:34 PM, Matthieu Vanhoutte wrote:
>> Dear Douglas,
>>
>> If the pons intensity used to normalize has been PVC'ed, c
Le 11/01/2016 20:33, Douglas N Greve a écrit :
On 01/11/2016 02:14 PM, Matthieu Vanhoutte wrote:
Dear Douglas,
Sorry if I wasn't clear. With the PVC, voxels intensities are modified,
right ?
Not necessarily. The GTM does not work this way. MG and RBV do. For an
ROI analysis, the GTM
Matthieu
>
> was this ever resolved? If not, you can upload the subject and we will
> take a look. You could also try messing with the watershed parameters
> (starting with changing the preflooding height to me more aggressive).
>
> cheers
> Bruce
>
>
>
> On Thu, 10
2015 19:02, "Douglas N Greve" <gr...@nmr.mgh.harvard.edu
> > <mailto:gr...@nmr.mgh.harvard.edu>> a écrit :
> >
> > It is not subsegmented in 6.0 either:). When you run gtmseg, it will
> > create the new segmentation that include pons and a
all gm
>
> On 12/18/15 6:08 AM, Matthieu Vanhoutte wrote:
>
> Hello Douglas,
>
> I have run mri_gtmpvc with static PET images using the following command :
> mri_gtmpvc --i PET.nii.gz --psf 6 --auto-mask 8 0.01 --seg gtmseg.mgz
> --reg register.dof6.lta --default-seg-
rate) so that people can
> at least replicate the software version you are using
>
>
> cheers
> Bruce
>
> On Tue, 15 Dec 2015, Matthieu Vanhoutte wrote:
>
> Hi Bruce,
>>
>> Is it better to overestimate than underestimate ? Please find joined this
>>
Dear Douglas,
Please see below :
2015-12-15 18:37 GMT+01:00 Douglas N Greve <gr...@nmr.mgh.harvard.edu>:
>
>
> On 12/15/2015 04:46 AM, Matthieu Vanhoutte wrote:
> > Dear experts,
> >
> > Could anyone answer to my questions below ?
> >
> > Thanks !
&g
t; >>
> >> 2015-12-15 17:38 GMT+01:00 Bruce Fischl <fis...@nmr.mgh.harvard.edu>:
> >> Hi Matthieu
> >>
> >> I think 6.0 looks better overall, even in the beta that you
> >> have. The 5.3
> >> segmentation looks
When you run gtmseg, it will
> create the new segmentation that include pons and a few other things
>
> On 12/15/2015 12:56 PM, Matthieu Vanhoutte wrote:
> > Dear Douglas,
> >
> > Please see below :
> >
> > 2015-12-15 18:37 GMT+01:00 Douglas N Greve <gr
Dear experts,
Could anyone answer to my questions below ?
Thanks !
Best regards,
Matthieu
2015-12-10 10:10 GMT+01:00 Matthieu Vanhoutte <matthieuvanhou...@gmail.com>:
> Dear FS experts,
>
> 1) First Is it possible to use the partial volume correction provided in
> t
Dear FS's experts,
I have tried the recon-all process on one subject with both FS v5.3 and
v6_beta.
Although subcortical structures seems to be better segmented in v6_beta, I
find that v6_beta over-segmented some other structures as cerebellum,
hippocampus, ...
I will attached in the FileDrop
> Bruce
>
>
> On Fri, 11 Dec 2015, Matthieu Vanhoutte wrote:
>
> Hi Bruce,
>>
>> Do you have an idea of what to do concerning this problem (below) ? I have
>> re-run with -notal-check and it worked not for all cases
>>
>> Best regards,
>> Ma
Hi Bruce,
Do you have an idea of what to do concerning this problem (below) ? I have
re-run with -notal-check and it worked not for all cases
Best regards,
Matthieu
2015-12-09 15:15 GMT+01:00 Matthieu Vanhoutte <matthieuvanhou...@gmail.com>:
> Hi Bruce,
>
> I tried to foll
Dear FS experts,
1) First Is it possible to use the partial volume correction provided in
the v6 beta version of FreeSurfer despite the fact that recon-all have been
done for all subjects with the v5.3 ?
2) Does this method supply an intensity normalisation for PET images ?
Best regards,
Hi Bruce,
Do you have an idea of how to solve this problem of skull stripping (below)
?
Best regards,
Matthieu
2015-12-09 16:25 GMT+01:00 Matthieu Vanhoutte <matthieuvanhou...@gmail.com>:
> Hi Bruce,
>
> In fact T1.mgz is ok, but the skull stripping failed and seemed to ha
e sure
> that your input volume has the correct direction cosines (that is, that
> what freeview thinks is anterior is actually anterior, etc...)
> cheers
> Bruce
>
>
>
> On Tue, 8 Dec 2015, Matthieu Vanhoutte wrote:
>
> Dear FS experts,
>>
>> I got no ans
kull stripping failed and generated an empty
> norm.mgz/aseg.auto_noCCseg.mgz the mri_cc code would hang.
>
> cheers
> Bruce
>
> On Wed, 9 Dec 2015,
> Matthieu Vanhoutte wrote:
>
> > Dear FS epxerts,
> >
> > I have launched a recon-all process on a subject.
problem started. Why is the
> norm warped? Actaully, it shouldn't be warped, although it might be
> truncated if the skull stripping failed.
>
>
> cheers
> Bruce
> On Wed, 9 Dec 2015, Matthieu Vanhoutte wrote:
>
> Hi Bruce,
>>
>> Indeed norm.mgz i
Hi Bruce,
I got no answer to my questions below with files provided thanks to
FileDrop.
Could you tell me if you received these questions and associated files ?
Thanks in advance !
Best regards,
Matthieu
2015-12-04 15:17 GMT+01:00 Matthieu Vanhoutte <matthieuvanhou...@gmail.com>:
>
Dear FS experts,
I got no answer to my question. Could anyone explain me what is the problem
and how to solve it ?
Best regards,
Matthieu
2015-12-04 16:11 GMT+01:00 Matthieu Vanhoutte <matthieuvanhou...@gmail.com>:
> Dear experts,
>
> I am confronted with some problem in
Dear experts,
I am confronted with some problem in the "recon-all" of a few subjects
concerning Talairach space, but don't know how to manage these.
Please find below the recon-all log with errors :
#
#@# Talairach Failure Detection Fri Dec 4
there is no
> bias in the results. We have found that most early AD cases work fine
> without needing special flags. It's more for late stage AD or hydrocephalus
> and such.
>
> cheers
> Bruce
>
>
>
> On Thu, 3 Dec 2015, Matthieu
> Vanhoutte wrote:
>
> > Dear FreeSurf
Dear FreeSurfer experts,
My question is in the title. I'm working on Alzheimer case where most of
the cases have large ventricles. Is it better in general use to apply
-bigventricles option on all subjects (for homogeneous calculus or
something like that...) or to distinct subtle cases of
l group is that outliers will affect your
> results a lot (they severely violate the assumption of gaussian noise) and
> can produce spurious effects.
>
> Best, Martin
>
>
>
> On 10/11/2015 04:31 PM, Matthieu Vanhoutte wrote:
>
> Dear experts,
>
> Could anyone please
Dear experts,
Could anyone please help me ? My group has small size (7 subjects) with non
equally spaced different timepoints (from 2 up to 4).
Best regards,
Matthieu
Le 30 sept. 2015 13:57, "Matthieu Vanhoutte" <matthieuvanhou...@gmail.com>
a écrit :
> Hi Martin,
>
&
Hello Martin,
Could you please find any time to answer me ?
Many thanks !
Best regards,
Matthieu
Le 30 sept. 2015 13:57, "Matthieu Vanhoutte" <matthieuvanhou...@gmail.com>
a écrit :
> Hi Martin,
>
> Thank you for helping !
>
> 1) What should I use for
>
> use lme_mass_fit_vw and the y is a simple vector. I would mask the image
> before doing this and only pass the brain voxels (to increase speed and
> reduce comparisons).
>
> Best, Martin
>
>
> On 09/29/2015 10:43 AM, Matthieu Vanhoutte wrote:
>
> Hi Mart
2015-09-29 15:04 GMT+02:00 Martin Reuter <mreu...@nmr.mgh.harvard.edu>:
> Hi Matthieu,
>
> if all your images are perfectly registered, you can do LME on a
> voxel-by-voxel basis, just as if you had hippocampal volume or any other
> ROI measure.
>
> Best, Martin
>
>
&
Dear experts,
I would like to know if it is possible to make a longitudinal study with
LME toolbox from volume FA maps registered in a common space ?
I don't have T1 images so the recon-all process couldn't be processed. But
if I put my 3D FA volume of dim = [nx,ny,nz] in a 1D nx*ny*nz voxels
or lme_mass_fit_vw functions in my mass
univariate case ? If yes, how do I have to format my 3D FA volume as input
of the LME toolbox ?
Best regards,
Matthieu
-
Matthieu Vanhoutte, MSc
Research Engineer - Department of Neuroradiology
Regional University Hospital, Lille, France
Dear Freesurfer experts,
It seems impossible to load ?h.aparc.annot annotation file on ?h.pial
surface of the fsaverage_sym subject. When I try under freeview, it crashes
and gives me this error :
*Did not find any volume geometry information in the surfacepBDid not
I can do it. Where could I send you these files ?
Best regards,
Matthieu
2015-08-28 17:12 GMT+02:00 Ruopeng Wang rpw...@nmr.mgh.harvard.edu:
Would it be possible to send us lh.pial and lh.aparc.annot that caused the
crash?
Best,
Ruopeng
On Aug 28, 2015, at 10:59 AM, Matthieu Vanhoutte
. It lists this type of option
cheers
Bruce
On Fri, 28 Aug 2015, Matthieu
Vanhoutte wrote:
I launched freeview, then added manually lh.pial and rh.pial of
fsaverage_sym. A this point all is OK.
Then it crashed when I try to load graphically lh.aparc.annot or
rh.aparc.annot. I viewed
.
Do you have a comman line way to manage to load annotation file under
freeview ?
Matthieu
2015-08-28 16:42 GMT+02:00 Douglas Greve gr...@nmr.mgh.harvard.edu:
what is your command line? Can you run it without the annotation?
On 8/28/15 5:58 AM, Matthieu Vanhoutte wrote:
Dear Freesurfer
I upload you this day an exemple with number vertex with same title name.
Thanks in advance for helping !
Best regards,
Matthieu
Le 21 août 2015 23:57, Douglas Greve gr...@nmr.mgh.harvard.edu a écrit :
Can you upload an example (with vertex numbers)?
On 8/21/15 3:37 PM, Matthieu Vanhoutte
?
On 8/19/15 1:25 PM, Matthieu Vanhoutte wrote:
Hello Freesurfer's experts,
I used the group analysis clusterwise correction with glmfit-sim and I
found that Annot field in Cluster Summary Table don't always fit well
with the corresponding region on ?h.aparc.a2009s.annot file.
How
regards,
Matthieu
Le 21 août 2015 19:49, Douglas Greve gr...@nmr.mgh.harvard.edu a écrit :
Sorry, what is the problem? Is sounds like xhemi should be apprpriate for
your application. fsaverage is not symmetric and will lead to biased
results.
On 8/20/15 9:27 AM, Matthieu Vanhoutte wrote
Dear FS experts,
I have shown in mailing list and xhemi commands as explained here, a
beginning of a solution to my problem :
http://surfer.nmr.mgh.harvard.edu/fswiki/Xhemi
However, I didn't understand all the steps needed in may case. I have
patients with unilateralized problem on left or
Hello Freesurfer's experts,
I used the group analysis clusterwise correction with glmfit-sim and I
found that Annot field in Cluster Summary Table don't always fit well
with the corresponding region on ?h.aparc.a2009s.annot file.
How is determined precisely each localization of each cluster in
subjects. You
can't use that as a covariate if it does not have any variation
On 08/04/2015 04:10 PM, Matthieu Vanhoutte wrote:
Douglas,
Please fond attached the fsgd file.
Cheers,
Matthieu
Le 4 août 2015 21:45, Douglas N Greve gr...@nmr.mgh.harvard.edu
mailto:gr
Hello experts,
Could anyone provide me an advice or answer to this problem ?
Thanks in advance !
Best regards,
Matthieu
Le 28 juil. 2015 14:12, Matthieu Vanhoutte matthieuvanhou...@gmail.com
a écrit :
Dear Freesurfer's Experts,
Please find below an error occuring when I use mri_glmfit
Douglas,
Please fond attached the fsgd file.
Cheers,
Matthieu
Le 4 août 2015 21:45, Douglas N Greve gr...@nmr.mgh.harvard.edu a
écrit :
can you send the fsgd file?
On 08/04/2015 03:42 PM, Matthieu Vanhoutte wrote:
Hello experts,
Could anyone provide me an advice or answer
Dear Freesurfer's Experts,
Please find below an error occuring when I use mri_glmfit :
Design matrix --
1.000 0.000 0.000 0.000 0.000 0.000 9.804 0.000 0.000
0.000 0.000 0.000 -15.576 0.000 0.000 0.000 0.000 0.000;
0.000 0.000 0.000 1.000
/FS_5.3/fsaverage/surf/lh.whiteWriting
annot to ./lh.CBF_CT.annot*
Best regards,
Matthieu
2015-06-06 0:15 GMT+02:00 Douglas N Greve gr...@nmr.mgh.harvard.edu:
what is the terminal output for mris_seg2annot?
On 06/05/2015 06:12 PM, Matthieu Vanhoutte wrote:
I tried it but gave me a black
Dear FreeSurfer's experts,
I would like to visualize on freeview two overlays on fsaverage cortical
surface.
I have used the code below found on the mailing list :
*mri_binarize --i sig1.mgh --min 0.1 --binval 1 --o sig1_th.mghmri_binarize
--i sig2.mgh --min 0.1 --binval 2 --o sig2_th.mgh*
I tried it but gave me a black surface.
Le 6 juin 2015 00:06, Douglas N Greve gr...@nmr.mgh.harvard.edu a
écrit :
Try it with 0 0 0 instead of 128 128 128
On 06/05/2015 07:44 AM, Matthieu Vanhoutte wrote:
Dear FreeSurfer's experts,
I would like to visualize on freeview two overlays
(/Variables Age Gender) ?
/Many thanks in advance for helping !
Best regards,
Matthieu/
/
On 3/12/15 1:30 PM, Matthieu Vanhoutte wrote:
Hello,
I have run GLM group analyses with Freesurfer tools according DODS
model, with six classes ((Male,Female) ; (Control,Left,Right)) and
one age variable
not come out of
BPM, then that is a problem that I cannot help you with (talk to whoever
programmed BPM).
doug
On 4/15/15 3:30 AM, Matthieu Vanhoutte wrote:
Hello Douglas,
Sorry if I haven't been clear. I'm trying to explain my needs :
1) I use the BPM toolbox to compute the GLM
the threshold, put
in the t-value you want, not a -log10(p). Also, don't do the adjustment for
1-tailed test because then it will interpret the input as -log10(p).
On 5/29/15 10:46 AM, Matthieu Vanhoutte wrote:
Dear experts,
I would like to use the clusterwise correction specified in the group
Dear experts,
I have run GLM group analyses on another software than FreeSurfer for
personal needs. I have now beta coefficients and residual datas on
fsaverage space.
I'd like to use then the clusterwise correction for multiple comparisons
provided by FreeSurfer. But I need for that to know the
, then that is a problem that I cannot help you with (talk to whoever
programmed BPM).
doug
On 4/15/15 3:30 AM, Matthieu Vanhoutte wrote:
Hello Douglas,
Sorry if I haven't been clear. I'm trying to explain my needs :
1) I use the BPM toolbox to compute the GLM analysis as mri_glmfit would
do
don't understand what you are asking for. If BPM outputs a
cluster-corrected volume, then why can't you just map that to the surface
and be done with it?
On 4/14/15 6:48 PM, Matthieu Vanhoutte wrote:
Hello Douglas,
Indeed BPM doesn't do Clusterwise correction.
What does the FWHM
on the SPM template
space, then run the SPM T1 template through recon-all to get the surfaces
On 04/13/2015 11:09 AM, Matthieu Vanhoutte wrote:
By the mean of SPM, the Biological Parmatring toolbox can do the FWE
correction and give me results on a glass brain. But I don't have any
Dear FreeSurfer's experts,
For personnal need I use the BPM toolbox (Biological Parametric Mapping) to
compute GLM analysis. The outputs of this Toolbox gave me beta maps and
Tmaps.
However, precedently I used the whole FreeSurfer group analysis tutorial on
other datas, including the Clusterwise
? You could use mri_volcluster,
but you'll need to know the FWHM of your BPM analysis
doug
On 4/14/15 12:17 PM, Matthieu Vanhoutte wrote:
Dear FreeSurfer's experts,
For personnal need I use the BPM toolbox (Biological Parametric Mapping)
to compute GLM analysis. The outputs of this Toolbox
Dear experts,
I had to make volumic statistical analysis for the need to use BPM toolbox.
So, I got in the output of this statistical analysis some volumic Tmaps.
As I did before some group analysis according to FStutorial, I would like
to apply the same method of Clusterwise Correction on my
correction in the volume. How could I do ?
Best regards,
Matthieu
2015-04-13 16:27 GMT+02:00 Douglas Greve gr...@nmr.mgh.harvard.edu:
If you did the analysis in the volume, then you have to do the
clusterwise correction in the volume.
On 4/13/15 6:05 AM, Matthieu Vanhoutte wrote:
Dear experts
...@nmr.mgh.harvard.edu:
Does the BPM toolbox (what's that?) not give you cluster correction? You
can try using mri_volcluster with the --grf option, but you'll need to know
the FWHM. Afterwards you can map the result to the surface
On 4/13/15 10:46 AM, Matthieu Vanhoutte wrote:
Hello Douglas,
Thanks
a bug. Try this version
ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/mri_surf2vol
On 03/26/2015 12:16 PM, Matthieu Vanhoutte wrote:
Dear experts,
I have some asl data on fsaverage surface and would like to compute
them on MNI305 volume. So I executed the commands below
Hello Douglas,
I have downloaded a new license and it successfully runs !
Best regards,
Matthieu
2015-03-31 12:39 GMT+02:00 Matthieu Vanhoutte matthieuvanhou...@gmail.com:
Hello Douglas,
I have download the new version of mri_surf2vol you supplied me, and have
copied it in the FS5.3 /bin
Dear experts,
I have some asl data on fsaverage surface and would like to compute them on
MNI305 volume. So I executed the commands below, but when merging left and
right hemispheres it seems that the *--fillribbon *option on
*MNI305.asl.nii.gz* output data didn't work for right hemisphere :
Thank you Douglas I will try this.
Matthieu Vanhoutte, MSc
Research Engineer - Neuroradiology Department
Regional University Hospital, Lille, France
Le 16 mars 2015 19:13, Douglas N Greve gr...@nmr.mgh.harvard.edu a
écrit :
For visualizing the overlap, I would probably create a segmentation
steps ?
Best regards,
-
Matthieu Vanhoutte, MSc
Research Engineer - Department of Neuroradiology
Regional University Hospital, Lille, France
___
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https
regards,
-
Matthieu Vanhoutte, MSc
Research Engineer - Department of Neuroradiology
Regional University Hospital, Lille, France
___
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu
Thank you Douglas.
Matthieu Vanhoutte, MSc
Research Engineer - Neuroradiology Department
Regional University Hospital, Lille, France
Le 16 mars 2015 18:17, Douglas N Greve gr...@nmr.mgh.harvard.edu a
écrit :
you'll need to use .33
On 03/16/2015 11:09 AM, Matthieu Vanhoutte wrote:
Dear
for slope, but concretely what significative results in both contrasts mean
?
Thank you in advance for helping !
Best regards,
-
Matthieu Vanhoutte, MSc
Research Engineer - Department of Neuroradiology
Regional University Hospital, Lille, France
2015-03-11 16
--cortex
Best regards,
-
Matthieu Vanhoutte, MSc
Research Engineer - Department of Neuroradiology
Regional University Hospital, Lille, France
2015-03-05 17:24 GMT+01:00 Douglas N Greve gr...@nmr.mgh.harvard.edu:
w format is the paint format output from your
previously cached
(qcached) and use the mri_preproc --cache-in command ?
Best regards,
-
Matthieu Vanhoutte, MSc
Research Engineer - Department of Neuroradiology
Regional University Hospital, Lille, France
2015-03-05 18:02 GMT+01:00 Douglas N Greve gr
Thank you Douglas but I don't understand the solution you propose. Could
you please show me the command lines ?
-
Matthieu Vanhoutte, MSc
Research Engineer - Department of Neuroradiology
Regional University Hospital, Lille, France
2015-03-05 16:45 GMT+01:00
...@nmr.mgh.harvard.edu:
Just add --trgsubject fsaverage to the mri_vol2surf command line. Run
mri_vol2surf with --help to get more info
On 03/05/2015 10:52 AM, Matthieu Vanhoutte wrote:
Thank you Douglas but I don't understand the solution you propose.
Could you please show me the command
--mask brain.fsaverage.lh.mgh*
Many thanks in advance !!
Best regards,
-
Matthieu Vanhoutte, MSc
Research Engineer - Department of Neuroradiology
Regional University Hospital, Lille, France
2015-03-02 21:13 GMT+01:00 Douglas N Greve gr...@nmr.mgh.harvard.edu
sphere.reg*
*# Smooth*
*mris_fwhm --s fsaverage --hemi lh --smooth-only --i lh.fsaverage.cbf.mgh
--fwhm 3 --o lh.fwhm3.fsaverage.cbf.mgh --mask brain.fsaverage.lh.mgh*
Many thanks in advance !!
Best regards,
-
Matthieu Vanhoutte, MSc
Research Engineer
first on the anatomical subject then on
fsaverage than what I've done ?
2) Smoothing with mris_fwhm is a good way with --mask option ?
Thank you for your precious advices !
Best regards,
-
Matthieu Vanhoutte, MSc
Research Engineer - Department of Neuroradiology
to project CBF maps on fsaverage, then to smooth the data on
surfaces ? Is my process could be improved ?
Best regards,
--
-
Matthieu Vanhoutte, MSc
Research Engineer - Department of Neuroradiology
Regional University Hospital, Lille, France
) with no
download link...
Where can I find this package and how to use it ?
Many thanks !
Best,
-
Matthieu Vanhoutte, MSc
Research Engineer - Department of Neuroradiology
Regional University Hospital, Lille, France
,
-
Matthieu Vanhoutte, MSc
Research Engineer - Department of Neuroradiology
Regional University Hospital, Lille, France
2014-09-19 16:35 GMT+02:00 Harms, Michael mha...@wustl.edu:
Hi,
I suggest you start with the documentation that accompanies the recently
released HCP pipelines
More precisely how to install *fsl-5.0.6* on ubuntu 12.10 or 14.04 ?
Thanks !
-
Matthieu Vanhoutte, MSc
Research Engineer - Department of Neuroradiology
Regional University Hospital, Lille, France
2014-09-19 17:18 GMT+02:00 Matthieu Vanhoutte matthieuvanhou
before I do my group analysis ?
Precisely, until now I have only used from FS v5.0 :
- T1.mgz to register ASL on anatomical
- mri_vol2surf to project CBF maps on fsaverage surface and smooth them
Thank you for replying !
Best,
-
Matthieu Vanhoutte, MSc
Research
Thank you Doug !
Matthieu
2014-08-29 11:26 GMT+02:00 Douglas Greve gr...@nmr.mgh.harvard.edu:
No, you can use 5.3 group analysis with 5.0 data
doug
On 8/29/14 4:28 AM, Matthieu Vanhoutte wrote:
Dear experts,
I'd like to use Freesurfer v5.3 to make group analysis on quantitative
Thank you Doug for this reply !
Best,
-
Matthieu Vanhoutte, MSc
Research Engineer - Department of Neuroradiology
Regional University Hospital, Lille, France
2014-08-19 16:55 GMT+02:00 Douglas Greve gr...@nmr.mgh.harvard.edu:
By using --sfmt curv
if this is what's causing the
error.
a.y
On Wed, 11 Dec 2013, Matthieu Vanhoutte wrote:
Hi Anastasia,
I have taken this original file in FSDIR5.1/bin/dmrirc.example and
modify
into dmrirc.tutorial, so this is meant for use with the version of
tracula
that's in 5.1 ?
I will switch
/matthieu/DTI_Alex/AR28/dmri/data_slice_*
*An exception has been thrown*
*Failed to read volume
/home/matthieu/NAS/matthieu/DTI_Alex/AR28/dmri/data_slice_Trace:
read_volume4DROI.*
Thanks for helping !
Matthieu
2013/12/12 Matthieu Vanhoutte matthieuvanhou...@gmail.com
Hello experts
Hello experts,
I am running the first pre-processing
step in Tracula on FS 5.1 and come across the error:
*set: Variable name must begin with a
letter*
I have attached my dmrirc file. Did I make a mistake in this file?
Best regards,
Matthieu
dmrirc.tutorial
Description: Binary data
On Wed, 11 Dec 2013, Matthieu Vanhoutte wrote:
Hello experts,
I am running the first pre-processing
step in Tracula on FS 5.1 and come across the error:
set: Variable name must begin with a
letter
I have attached my dmrirc file. Did I make a mistake in this file?
Best regards
101 - 190 of 190 matches
Mail list logo
