SubCortGrayVol on Mac is 208022 and 296990 on VM, for the same
patient.Does the processing time have something to with the results,it
varies a lot.
On 29 January 2013 19:33, Nick Schmansky wrote:
> Chikku,
>
> Can you send us your recon-all.log and recon-all.cmd files? I'd like to
> inve
Hi Doug,
It is indeed correct that columns 1 and 17 are highly correlated. However,
for another version of the fsgd file, where the corresponding class and
covariate values where identical but with other covariates (so leading to
the same columns 1 and 17, other columns are different), all went
Hi Bruce,
What do you mean: no support anymore or no new development?
Cheers,
Ed
On 30 Jan 2013, at 13:41, Jacobs H (NP) wrote:
> Message: 7
> Date: Mon, 21 Jan 2013 19:19:25 -0500 (EST)
> From: Bruce Fischl
> Subject: Re: [Freesurfer] beta
> To: Colin Reveley
> Cc: Joshua Lee , freesurfer@nm
Hi Ed
I mean that the grant funding FreeSurfer maintainance didn't get renewed.
We certainly will continue support and development, but it does have a
substantial negative impact on the engineering we can do, such as getting
rid of the 1mm restrictions.
cheers
Bruce
On
Wed, 30 Jan 2013, E
Oh, sorry, I thought you said you were using mri_glmfit-sim (which does
not have an FDR option). Are you using the FDR in QDEC? If so, it will
display the voxel-wise threshold that realizes the FDR threshold. You
can then run mri_glmfit-sim --cache threshold sign --cwpvalthresh .99
where thresho
Knut,
thanks for testing the other two builds and for filing the report. i
noticed they had you run valgrind. if you want, i've put a debug build of
mri_convert here:
ftp://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/misc/linux-centos6_x86_64/
running it in valgrind i think would output sou
This news is most unfortunate. We all appreciate the Freesurfer team's
work. Freesurfer, and project's like these, provide a substantial
multiplier effect to the productivity of the neuroscience community. There
should be more funding for these types of neuroscience research
infrastructure.
-
Joshu
thanks Joshua
I wish study sections agreed with you. We will probably put in another
support grant in the next year when I work up the energy to write one (they
are quite dull). I'll probably request support letters at that time.
cheers
Bruce
On Wed, 30 Jan 2013, Joshua Lee
wrote:
This
Hello Experts,
Unfortunately I am currently only able to run tracula on a personal computer,
System Version: Mac OS X 10.6.7 (10J869)
Kernel Version: Darwin 10.7.0.
I have no problem running a single subject on the dmrirc_single subject
configuration file. When I try to run several sub
Hi Cat - What's the "runlist" variable set to in the configuration file?
a.y
On Wed, 30 Jan 2013, Cat Chong wrote:
Hello Experts,
Unfortunately I am currently only able to run tracula on a personal
computer, System Version: Mac OS X 10.6.7 (10J869)
Kernel Version: Darwin 10.7.0.
I
Dear freesurfer experts,
I have questions about the MRF in Freesurfer:
(1) I have a T1 image and sub-cortical segmentation for it (nifti
format). But the segmentation is not perfect and I would like to relabel
it using the ICM algorithm as shown in fig.8 in paper: Whole Brain
Segmentation: Aut
Hi Andrew --
First the good news:
Indeed, there is a much simpler (and quicker way):
mris_pmake --subj --hemi --surface
--mpmProg autodijk --mpmArgs vertexPolar:0 --mpmOverlay euclidean
If called with hemi=lh and surface=smoothwm, it will create an output
overlay called lh.autodijk.crv.
thanks Fidel
we will certainly take you up on it in the next submission
Bruce
On Wed, 30 Jan
2013, Fidel Vila wrote:
> Sorry to hear about this. If there is anything it can be done at a
> "FS-virtual-community" level that could support the funding request, I'd be
> supportive of it.
>
> Fidel
Hi Zhennan
there is an option to mri_ca_label to read in a prior segmentation and
iterate the MRF minimization, but unless your labels and conventions are
identical to our's it's unlikely to work. You can use mri_ca_train to build
the MRF and likelihoods and such if you want.
cheers
Bruce
On
Hello Experts,
Please forgive another question.
I have run 59 people through the recon-all freesurfer longitudinal stream with
2 timepoints (tp1id, tp2id).
I want to run these subjects through "tracula" next, since the same people also
received repeated Tensor imaging.
To process everybody t
oh, that's way too big a difference. Something is wrong
On Wed, 30 Jan 2013,
Varghese Chikku wrote:
SubCortGrayVol on Mac is 208022 and 296990 on VM, for the same patient.Does
the processing time have
something to with the results,it varies a lot.
On 29 January 2013 19:33, Nick Schman
The options for these 3: GausCurv FoldInd CurvInd do not exist when I use the -h
Thanks,
Catherine
On 1/29/13, Douglas N Greve wrote:
> yes, use the -m or --meas flags. If you run it with -h, you will get
> help and examples
> doug
> On 01/29/2013 04:12 PM, Nucleos P wrote:
>> Hello again!
>>
>>
Hi Catherine - Yes, for now treat each time point as a different subject
for trac-all purposes. (You can pass the time points' recon-all
directories either before or after longitudinal processing.) However,
there may also be a longitudinal version of tracula coming soon - but you
didn't hear
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