Re: [Freesurfer] convert phillips PAr/Rec files

2013-04-24 Thread Lukas . Scheef 
You might use dcm2nii written by Chris Rorden
http://www.nitrc.org/projects/mricron

It is part of the MriCron package. For Windows, you can directly use the gui by 
dragging the files on the GUI. For MAC or Linux use the command line.

Beste wishes,

Luke

Am 24.04.2013 um 21:56 schrieb "Douglas N Greve" :

> sorry, we don't have a way to convert par/rec files
> doug
> 
> On 04/24/2013 03:50 PM, Jon Wieser wrote:
> > dear FS experts
> >
> > I have some PAR/REc format anatomical file from a Phillips scanner. I want 
> > to convert the to nifti or MGZ format for freesurfer.  how do I do this 
> > conversion
> > what program do I use?
> >
> > JoPhone: 414-229-7145
> 
> --
> Douglas N. Greve, Ph.D.
> MGH-NMR Center
> gr...@nmr.mgh.harvard.edu
> Phone Number: 617-724-2358
> Fax: 617-726-7422
> 
> Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
> FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2
> www.nmr.mgh.harvard.edu/facility/filedrop/index.html
> Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/
> 
> ___
> Freesurfer mailing list
> Freesurfer@nmr.mgh.harvard.edu
> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
> 
> 
> The information in this e-mail is intended only for the person to whom it is
> addressed. If you believe this e-mail was sent to you in error and the e-mail
> contains patient information, please contact the Partners Compliance HelpLine 
> at
> http://www.partners.org/complianceline . If the e-mail was sent to you in 
> error
> but does not contain patient information, please contact the sender and 
> properly
> dispose of the e-mail.
> 
___
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer


The information in this e-mail is intended only for the person to whom it is
addressed. If you believe this e-mail was sent to you in error and the e-mail
contains patient information, please contact the Partners Compliance HelpLine at
http://www.partners.org/complianceline . If the e-mail was sent to you in error
but does not contain patient information, please contact the sender and properly
dispose of the e-mail.

Re: [Freesurfer] mri_glmfit --no-sim error: cannot find any csd files

2013-04-24 Thread Douglas Greve 
Hi Jeni, done pass that path to the csd, just the csd base. In your case 
I think it would be 1GroupAvg-Cor-thickness-Mod-VAS

doug


On 4/24/13 8:47 PM, Jeni Chen wrote:

Hello,

I was trying to run mri_glmfit-sim at a lower cwpvalthresh so I 
specified the --no-sim option to avoid re-running the entire 
simulation again. I entered my DSC file but in the end I get the error 
message: "cannot find any csd files". Here is what I entered:


mri_glmfit-sim \
--glmdir GLMFIT/LH_1GroupAvg_ModVAS_nuissanceAGE_DOSS \
--cwpvalthresh .999 \
--no-sim 
GLMFIT/LH_1GroupAvg_ModVAS_nuissanceAGE_DOSS/csd/mc-z.abs.3.j001-1GroupAvg-Cor-thickness-Mod-VAS.csd


I copied and pasted the csd file from its own folder to the top 
directory, but it gave the same error. I've attached the error log in 
case you want to have a look.


Thanks for your help!

Jeni







___
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer


___
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer


The information in this e-mail is intended only for the person to whom it is
addressed. If you believe this e-mail was sent to you in error and the e-mail
contains patient information, please contact the Partners Compliance HelpLine at
http://www.partners.org/complianceline . If the e-mail was sent to you in error
but does not contain patient information, please contact the sender and properly
dispose of the e-mail.

Re: [Freesurfer] System recommendations for Freesurfer

2013-04-24 Thread Douglas Greve 

I think Nick meant to say 400MB per subject, not 400GB per subject:)



On 4/24/13 8:42 PM, Nick Schmansky wrote:
> Graham,
>
> Hi, to answer each:
>
> Intel vs AMD:  no preference.  also, CPU speed is not critical.  Its
> better to have at least 4GB, and budget 4GB per subject you want to
> process simultaneously.  Try to get a 'Sandy bridge' motherboard
> architecture or whatever is newer.  This allows better addressing of
> scattered memory which is common in freesurfer, and it alone accounts for
> a 5% or so speedup.  AMD might have a similar memory controller.
>
> ATI vs nVidia:  we still spec nVidia because we dont have problems with
> its OpenGL-X driver under linux.  perhaps ATI has finally supplied one
> that works, but I havent tried in a couple years.  ATI cards on the Mac
> work fine with freesurfer though.
>
> GPU: we no longer support CUDA or GPU development because of lack of
> resources and difficulty, in preference to using OpenMP, which uses CPU
> cores.
>
> disk: freesurfer is not disk intensive, so SSD is not a benefit.  budget
> 400GB per subject for storage.
>
> Linux: both freesurfer and fsl groups use Centos in our Centers.  they
> seem to work well.
>
> Hope this helps!
>
> Nick
>
>
>
>> Hi all,
>>
>> I am looking for current recommendations for specs for a desktop Linux box
>> for running Freesurfer (and friends), both recon-all, and the interactive
>> graphical tools.
>>
>> I have read the generic recommendations here:
>>
>> http://surfer.nmr.mgh.harvard.edu/fswiki/SystemRequirements
>> (also here as surfer is down)...
>> http://webcache.googleusercontent.com/search?q=cache:Q113A-rSkxEJ:surfer.nmr.mgh.harvard.edu/fswiki/SystemRequirements&client=firefox-a&hl=en&gl=us&strip=1
>>
>> Feel free to point me to existing email threads if I've missed the place
>> where this was definitively covered!
>>
>> I'd like any more detailed input such as:
>>
>> CPU: Intel vs AMD, and the extent to which more cores increase
>> performance.
>>
>> Video card:
>> -- AMD/ATI or nVidia?  My model is that nVidia has had better support for
>> OpenGL/Mesa -- still true?
>> -- if nVidia, then how many CUDA cores and RAM is beneficial for FS's CUDA
>> code?
>>
>> Hard drive: Does SSD make much difference while running recon-all?
>>
>> Linux distro: Which are favored for use with Freesurfer, FSL, etc?
>>
>> Thanks!
>>
>> -- Graham
>>
>> ___
>> Freesurfer mailing list
>> Freesurfer@nmr.mgh.harvard.edu
>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
>>
>>
>>
> ___
> Freesurfer mailing list
> Freesurfer@nmr.mgh.harvard.edu
> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
>
>

___
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer


The information in this e-mail is intended only for the person to whom it is
addressed. If you believe this e-mail was sent to you in error and the e-mail
contains patient information, please contact the Partners Compliance HelpLine at
http://www.partners.org/complianceline . If the e-mail was sent to you in error
but does not contain patient information, please contact the sender and properly
dispose of the e-mail.

Re: [Freesurfer] System recommendations for Freesurfer

2013-04-24 Thread Nick Schmansky 
Graham,

Hi, to answer each:

Intel vs AMD:  no preference.  also, CPU speed is not critical.  Its
better to have at least 4GB, and budget 4GB per subject you want to
process simultaneously.  Try to get a 'Sandy bridge' motherboard
architecture or whatever is newer.  This allows better addressing of
scattered memory which is common in freesurfer, and it alone accounts for
a 5% or so speedup.  AMD might have a similar memory controller.

ATI vs nVidia:  we still spec nVidia because we dont have problems with
its OpenGL-X driver under linux.  perhaps ATI has finally supplied one
that works, but I havent tried in a couple years.  ATI cards on the Mac
work fine with freesurfer though.

GPU: we no longer support CUDA or GPU development because of lack of
resources and difficulty, in preference to using OpenMP, which uses CPU
cores.

disk: freesurfer is not disk intensive, so SSD is not a benefit.  budget
400GB per subject for storage.

Linux: both freesurfer and fsl groups use Centos in our Centers.  they
seem to work well.

Hope this helps!

Nick



> Hi all,
>
> I am looking for current recommendations for specs for a desktop Linux box
> for running Freesurfer (and friends), both recon-all, and the interactive
> graphical tools.
>
> I have read the generic recommendations here:
>
> http://surfer.nmr.mgh.harvard.edu/fswiki/SystemRequirements
> (also here as surfer is down)...
> http://webcache.googleusercontent.com/search?q=cache:Q113A-rSkxEJ:surfer.nmr.mgh.harvard.edu/fswiki/SystemRequirements&client=firefox-a&hl=en&gl=us&strip=1
>
> Feel free to point me to existing email threads if I've missed the place
> where this was definitively covered!
>
> I'd like any more detailed input such as:
>
> CPU: Intel vs AMD, and the extent to which more cores increase
> performance.
>
> Video card:
> -- AMD/ATI or nVidia?  My model is that nVidia has had better support for
> OpenGL/Mesa -- still true?
> -- if nVidia, then how many CUDA cores and RAM is beneficial for FS's CUDA
> code?
>
> Hard drive: Does SSD make much difference while running recon-all?
>
> Linux distro: Which are favored for use with Freesurfer, FSL, etc?
>
> Thanks!
>
> -- Graham
>
> ___
> Freesurfer mailing list
> Freesurfer@nmr.mgh.harvard.edu
> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
>
>
>

___
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer


The information in this e-mail is intended only for the person to whom it is
addressed. If you believe this e-mail was sent to you in error and the e-mail
contains patient information, please contact the Partners Compliance HelpLine at
http://www.partners.org/complianceline . If the e-mail was sent to you in error
but does not contain patient information, please contact the sender and properly
dispose of the e-mail.

[Freesurfer] mri_glmfit --no-sim error: cannot find any csd files

2013-04-24 Thread Jeni Chen 
Hello,I was trying to run mri_glmfit-sim at a lower cwpvalthresh so I specified the --no-sim option to avoid re-running the entire simulation again. I entered my DSC file but in the end I get the error message: "cannot find any csd files". Here is what I entered:mri_glmfit-sim \--glmdir GLMFIT/LH_1GroupAvg_ModVAS_nuissanceAGE_DOSS \--cwpvalthresh .999 \--no-sim GLMFIT/LH_1GroupAvg_ModVAS_nuissanceAGE_DOSS/csd/mc-z.abs.3.j001-1GroupAvg-Cor-thickness-Mod-VAS.csdI copied and pasted the csd file from its own folder to the top directory, but it gave the same error. I've attached the error log in case you want to have a look. Thanks for your help!Jeni



mc-z.abs.3.j001-1GroupAvg-Cor-thickness-Mod-VAS.csd.mri_glmfit-sim.log
Description: Binary data
___
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer


The information in this e-mail is intended only for the person to whom it is
addressed. If you believe this e-mail was sent to you in error and the e-mail
contains patient information, please contact the Partners Compliance HelpLine at
http://www.partners.org/complianceline . If the e-mail was sent to you in error
but does not contain patient information, please contact the sender and properly
dispose of the e-mail.

Re: [Freesurfer] surfer.nmr.mgh.harvard.edu down?

2013-04-24 Thread Nick Schmansky 
Graham and other wiki users,

The wiki is still accessible if you use 'https' instead of 'http'. 
Because wiki pages link to each other, you may run into links where you
need to repeat this change.

We're hoping the spambots that were slowing our wiki system will go away
if accesses continue to fail for them.  They originate from many different
subnets, so a simple blacklist is not yet an option.  It may take some
time to devise a working solution.

Sorry for the hassle.

Nick


> Hi Graham
>
> yes, we have been the target of a denial-of-service attack and have taken
> it offline for external users for a bit
> Bruce
> On Wed, 24 Apr 2013, Graham Wideman
> wrote:
>
>> Hi MGH-ers,
>>
>>> From where I sit (San Diego), http://surfer.nmr.mgh.harvard.edu/ seems
>>> to have been non-responsive at least since about 4 pm west-coast time.
>>> It's now 4:40 pm.
>>
>> http://nmr.mgh.harvard.edu is working fine.
>>
>> Perhaps you are already on top of this, but in case not...
>>
>> Thanks,
>>
>> -- Graham
>>
>> ___
>> Freesurfer mailing list
>> Freesurfer@nmr.mgh.harvard.edu
>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
>>
>>
>>
> ___
> Freesurfer mailing list
> Freesurfer@nmr.mgh.harvard.edu
> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
>
>
>

___
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer


The information in this e-mail is intended only for the person to whom it is
addressed. If you believe this e-mail was sent to you in error and the e-mail
contains patient information, please contact the Partners Compliance HelpLine at
http://www.partners.org/complianceline . If the e-mail was sent to you in error
but does not contain patient information, please contact the sender and properly
dispose of the e-mail.

[Freesurfer] System recommendations for Freesurfer

2013-04-24 Thread Graham Wideman 
Hi all,

I am looking for current recommendations for specs for a desktop Linux box for 
running Freesurfer (and friends), both recon-all, and the interactive graphical 
tools.

I have read the generic recommendations here:

http://surfer.nmr.mgh.harvard.edu/fswiki/SystemRequirements
(also here as surfer is down)...
http://webcache.googleusercontent.com/search?q=cache:Q113A-rSkxEJ:surfer.nmr.mgh.harvard.edu/fswiki/SystemRequirements&client=firefox-a&hl=en&gl=us&strip=1

Feel free to point me to existing email threads if I've missed the place where 
this was definitively covered!

I'd like any more detailed input such as:

CPU: Intel vs AMD, and the extent to which more cores increase performance.

Video card:
-- AMD/ATI or nVidia?  My model is that nVidia has had better support for 
OpenGL/Mesa -- still true?
-- if nVidia, then how many CUDA cores and RAM is beneficial for FS's CUDA code?

Hard drive: Does SSD make much difference while running recon-all?

Linux distro: Which are favored for use with Freesurfer, FSL, etc?

Thanks!

-- Graham

___
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer


The information in this e-mail is intended only for the person to whom it is
addressed. If you believe this e-mail was sent to you in error and the e-mail
contains patient information, please contact the Partners Compliance HelpLine at
http://www.partners.org/complianceline . If the e-mail was sent to you in error
but does not contain patient information, please contact the sender and properly
dispose of the e-mail.

Re: [Freesurfer] surfer.nmr.mgh.harvard.edu down?

2013-04-24 Thread Bruce Fischl 
Hi Graham

yes, we have been the target of a denial-of-service attack and have taken 
it offline for external users for a bit
Bruce
On Wed, 24 Apr 2013, Graham Wideman 
wrote:

> Hi MGH-ers,
>
>> From where I sit (San Diego), http://surfer.nmr.mgh.harvard.edu/ seems to 
>> have been non-responsive at least since about 4 pm west-coast time. It's now 
>> 4:40 pm.
>
> http://nmr.mgh.harvard.edu is working fine.
>
> Perhaps you are already on top of this, but in case not...
>
> Thanks,
>
> -- Graham
>
> ___
> Freesurfer mailing list
> Freesurfer@nmr.mgh.harvard.edu
> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
>
>
>
___
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer


The information in this e-mail is intended only for the person to whom it is
addressed. If you believe this e-mail was sent to you in error and the e-mail
contains patient information, please contact the Partners Compliance HelpLine at
http://www.partners.org/complianceline . If the e-mail was sent to you in error
but does not contain patient information, please contact the sender and properly
dispose of the e-mail.

[Freesurfer] surfer.nmr.mgh.harvard.edu down?

2013-04-24 Thread Graham Wideman 
Hi MGH-ers,

>From where I sit (San Diego), http://surfer.nmr.mgh.harvard.edu/ seems to have 
>been non-responsive at least since about 4 pm west-coast time. It's now 4:40 
>pm.

http://nmr.mgh.harvard.edu is working fine.

Perhaps you are already on top of this, but in case not...

Thanks,

-- Graham

___
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer


The information in this e-mail is intended only for the person to whom it is
addressed. If you believe this e-mail was sent to you in error and the e-mail
contains patient information, please contact the Partners Compliance HelpLine at
http://www.partners.org/complianceline . If the e-mail was sent to you in error
but does not contain patient information, please contact the sender and properly
dispose of the e-mail.

Re: [Freesurfer] Fwd: Conversion

2013-04-24 Thread Douglas N Greve 

This looks wrong:
W = TalXFM *  Norig * inv(Torig);
If RAS = A.vox2ras1 * [i;j;k;1]; (Note: vox2ras = Norig), then
just
mni305 = TalXFM*A.vox2ras1 * [i;j;k;1]

One way to check is to display the MNI305 and ScannerRAS in the tkmedit 
control window. Take the RAS from the control window, put it into your 
formula and see if you the MNI305value.

doug

On 04/24/2013 12:00 PM, Garikoitz Lerma-Usabiaga wrote:
> Hi Doug,
> I try to make the question shorter, hopefully you will be able to give 
> me a hint:
>
> Do you think this method to cut every subjects hippo-subfield 
> according to their MNI305 Y coordinate could be accurate?
>
> (for every voxel in every subfield for every subject, do: )
>
> > RAS = A.vox2ras1 * [i;j;k;1];
>
> > MNI305 = W * RAS;  % W = TalXFM *  Norig * inv(Torig);
>
> > if MNI305(2) < -20   then   A.vol(i,j,k) = 0;
>
>
> I find that every subject is cut very differently (the Y plane goes 
> usually to the head), where do you think could be the error, in the 
> within subject vox2ras or in the MNI305 transformation? Shouldn't I 
> use this method at all?
>
>
> many many thanks again,
> Gari
>
>
> -- Forwarded message --
> From: *Garikoitz Lerma-Usabiaga*  >
> Date: Sat, Apr 20, 2013 at 2:31 AM
> Subject: Conversion
> To: Douglas N Greve  >
>
>
> Hi Doug,
> sorry to bother you again with a direct message, one of your 
> colleagues has been helping out but I don't think he got it right and 
> before posting it publicly I would like  to know your opinion.
>
> *OBJECTIVE*:
> I want to cut hippo-subfields with a vertical plane in Y. That plane 
> is defined by a MNI305 coordinate (Y = -20).
>
>
> *METHOD*:
> I created a script in Matlab that reads (per every subject):
> > TalXFM = xfm_read('talairach.xfm');
> > ORIG = MRIread('orig.mgz');
> > Norig = ORIG.vox2ras;
> > Torig = ORIG.tkrvox2ras;
> > W = TalXFM *  Norig * inv(Torig);
>
> And reads every hippo_subfield:
> > A = MRIread('posterior_left_CA1.mgz');
> > A.vol=permute(A.vol,[2 1 3]);
>
> Then I just loop through every voxel to set to zero all voxels one 
> side of that MNI305 coordinate:
>
> > RAS = A.vox2ras1 * [i;j;k;1];
>
> > MNI305 = W * RAS;
>
> > if MNI305(2) < -20   then A.vol(i,j,k) = 0;
>
> Then I permute and write it again (afterwards I can sum the modified 
> volumes per every subfield).
>
> > A.vol=permute(A.vol,[2 1 3]);
>
> > MRIwrite(A, 'new_posterior_left_CA1.mgz');
>
>
> *PROBLEM*:
> the vertical plane is not ok, usually it goes out of the hippocampus 
> or just touches a bit of it (it should separate the head, so be a 
> quarter of it). But it is a vertical plane.
>
>
> *QUESTIONS*:
> >  RAS = A.vox2ras1 * [i;j;k;1];   >> Is this Scanner_RAS or Volume_RAS?
> > In any case, it gives wrong results (when I compare to freeview or 
> tkmedit), is this method of calculating RAS coordinates ok? Is there 
> any other method?
> > MNI305 = W * RAS;  >> What RAS coordinate should I use here? The 
> obtained in the previous step is OK?
> > Do you think that these methods are accurate enough to accomplish 
> what I am trying to do or I should try another approach?
>
>
>
> Many many thanks again for your help, I will be happy to make the 
> results available for everybody if this works (I think this makes the 
> second Samuel Adams :) )
> br,
> Gari
>
>

-- 
Douglas N. Greve, Ph.D.
MGH-NMR Center
gr...@nmr.mgh.harvard.edu
Phone Number: 617-724-2358
Fax: 617-726-7422

Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2
www.nmr.mgh.harvard.edu/facility/filedrop/index.html
Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/

___
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer


The information in this e-mail is intended only for the person to whom it is
addressed. If you believe this e-mail was sent to you in error and the e-mail
contains patient information, please contact the Partners Compliance HelpLine at
http://www.partners.org/complianceline . If the e-mail was sent to you in error
but does not contain patient information, please contact the sender and properly
dispose of the e-mail.

Re: [Freesurfer] Fwd: Comparing HRF undershoots between conditions

2013-04-24 Thread Douglas N Greve 
You don't generate a negative coefficient. The sign and magnitude of the 
coefficient is determined by the fitting procedure. It may be the case 
that a positive coef fits the data better than a negative. You should 
not change the gamma parameters.
doug



On 04/24/2013 04:06 PM, SHAHIN NASR wrote:
>
> I know but how can we generate negative coefficient? To clarify, we 
> use alpha=2, delta=2.25 tau=1.25 to generate default HRF. Using 
> negative values for alpha, delta or tau, does not invert the shape of 
> the curve (HRF).
>
>
> On Wed, Apr 24, 2013 at 3:12 PM, Douglas N Greve 
> mailto:gr...@nmr.mgh.harvard.edu>> wrote:
>
>
> What do you mean the gamma function generates positive values? It
> will create a regressor with a positive-going HRF. However, the
> regression coefficient can be negative which would invert the
> shape. The reg coef is fit to the data, so the data will tell you
> whether there is an undershoot or not.
> doug
>
>
>
> On 04/24/2013 03:02 PM, SHAHIN NASR wrote:
>
> Hi Doug,
> Sorry to follow this topic with a delay but we tried to
> model BOLD signal undershoot with a gamma function and we
> failed. The problem is, gamma function generates positive
> values and we can NOT use "inverse gamma function" (or
> otherfunction similar to that) as a part of mkanalysis-sess
> (for modeling BOLD signal undershoot). We even used matlab
> gammafit to estimate parameters and it said that values should
> be positive otherwise gammafit function fails.
> Do you have any suggestion?
>
>
>
> On Wed, Apr 10, 2013 at 6:46 PM, Douglas N Greve
> mailto:gr...@nmr.mgh.harvard.edu>
>  >> wrote:
>
>
> yes, that is what you want. The only other way that comes
> to mind
> is to model each event type as two event types one delayed
> relative to the other. Then model the responseto each as a
> gamma.
> If the delay is right, then the first gamma should model
> the main
> positive response and the second gamma will model the negative
> response. both will be independent from the other.
>
> doug
>
>
> On 04/10/2013 05:00 PM, sha...@nmr.mgh.harvard.edu
> 
>  > wrote:
>
> I think I figured it out but I want to double check. I am
> generating
> group-average map for my subjects using isxconcat-sess
> command
> which
> generates ces maps for each time frame. I think these
> maps are
> what I
> wanted. Right?
> If you still have other solutions that you think may
> generate more
> reliable results, I am eager to know. For instance, is
> there
> anyway to
> fit a model as we do for spmhrf or fslhrf, but just
> for the
> negative
> peak?
>
> Regards
>
> That's the problem Doug. I have already generated
> the FIR
> model but how
> can
> I show the sig MAP for one "particulat time
> point".  What
> are the other
> ways?
>
>
> On Wed, Apr 10, 2013 at 4:05 PM, Douglas N Greve
>  
>  >>wrote:
>
>
> Hi Shahin, there are several ways that you
> could do
> it. The one that
> immediately comes to mind is to use an FIR and
> then
> test for a
> difference
> at a particular post stimulus time point.
> doug
>
>
>
>
> On 04/10/2013 03:54 PM, SHAHIN NASR wrote:
>
> Hi,
>   I want to generate a map to show the
> significant difference
> between
> HRF undershoot  (negative peak of activity)
> between two conditions
> independent from the positive peak. Is there
> anyway, to generate this
> map?
>
> P.S.: Please note that I need a map and
> not a time
> course graph.
>
>
>

Re: [Freesurfer] convert phillips PAr/Rec files

2013-04-24 Thread Douglas N Greve 

sorry, we don't have a way to convert par/rec files
doug

On 04/24/2013 03:50 PM, Jon Wieser wrote:
> dear FS experts
>
> I have some PAR/REc format anatomical file from a Phillips scanner. I want to 
> convert the to nifti or MGZ format for freesurfer.  how do I do this 
> conversion
> what program do I use?
>
> JoPhone: 414-229-7145

-- 
Douglas N. Greve, Ph.D.
MGH-NMR Center
gr...@nmr.mgh.harvard.edu
Phone Number: 617-724-2358
Fax: 617-726-7422

Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2
www.nmr.mgh.harvard.edu/facility/filedrop/index.html
Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/

___
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer


The information in this e-mail is intended only for the person to whom it is
addressed. If you believe this e-mail was sent to you in error and the e-mail
contains patient information, please contact the Partners Compliance HelpLine at
http://www.partners.org/complianceline . If the e-mail was sent to you in error
but does not contain patient information, please contact the sender and properly
dispose of the e-mail.

[Freesurfer] Alternate seed points in Tracula

2013-04-24 Thread Sean Hatton 
Hi all, 

Is it possible to use the Tracula bedpostx data to run Probtrackx with 
different seed points? For example:

1. Run all of Tracula on subject. 
2. Extract seed masks from FS (eg seed superior temporal gurus to target 
anterior insula). 
3. Run Probtrackx with the dbedpost data and masks in diffusion space. 

Is this feasible? I would get connection strength but how would I get FA, AD, 
RD etc? Should I correct for ICV? 

Or am I barking up the wrong tree? 

Sean Hatton 
Brain and Mind Research Institute 
University of Sydney 

___
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer


The information in this e-mail is intended only for the person to whom it is
addressed. If you believe this e-mail was sent to you in error and the e-mail
contains patient information, please contact the Partners Compliance HelpLine at
http://www.partners.org/complianceline . If the e-mail was sent to you in error
but does not contain patient information, please contact the sender and properly
dispose of the e-mail.

[Freesurfer] convert phillips PAr/Rec files

2013-04-24 Thread Jon Wieser 
dear FS experts

I have some PAR/REc format anatomical file from a Phillips scanner. I want to 
convert the to nifti or MGZ format for freesurfer.  how do I do this conversion
what program do I use?

Jon

-- 
Jon Wieser
Research Specialist
UW-Milwaukee
Psychology Department, Pearse Hall Rm 366
2441 East Hartford Ave
Milwaukee, WI 53211
Phone: 414-229-7145
Fax: 414-229-5219
___
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer


The information in this e-mail is intended only for the person to whom it is
addressed. If you believe this e-mail was sent to you in error and the e-mail
contains patient information, please contact the Partners Compliance HelpLine at
http://www.partners.org/complianceline . If the e-mail was sent to you in error
but does not contain patient information, please contact the sender and properly
dispose of the e-mail.

Re: [Freesurfer] Fwd: Comparing HRF undershoots between conditions

2013-04-24 Thread Douglas N Greve 

What do you mean the gamma function generates positive values? It will 
create a regressor with a positive-going HRF. However, the regression 
coefficient can be negative which would invert the shape. The reg coef 
is fit to the data, so the data will tell you whether there is an 
undershoot or not.
doug


On 04/24/2013 03:02 PM, SHAHIN NASR wrote:
> Hi Doug,
> Sorry to follow this topic with a delay but we tried to model BOLD 
> signal undershoot with a gamma function and we failed. The problem is, 
> gamma function generates positive values and we can NOT use "inverse 
> gamma function" (or otherfunction similar to that) as a part of 
> mkanalysis-sess (for modeling BOLD signal undershoot). We even used 
> matlab gammafit to estimate parameters and it said that values should 
> be positive otherwise gammafit function fails.
> Do you have any suggestion?
>
>
>
> On Wed, Apr 10, 2013 at 6:46 PM, Douglas N Greve 
> mailto:gr...@nmr.mgh.harvard.edu>> wrote:
>
>
> yes, that is what you want. The only other way that comes to mind
> is to model each event type as two event types one delayed
> relative to the other. Then model the responseto each as a gamma.
> If the delay is right, then the first gamma should model the main
> positive response and the second gamma will model the negative
> response. both will be independent from the other.
>
> doug
>
>
> On 04/10/2013 05:00 PM, sha...@nmr.mgh.harvard.edu
>  wrote:
>
> I think I figured it out but I want to double check. I am
> generating
> group-average map for my subjects using isxconcat-sess command
> which
> generates ces maps for each time frame. I think these maps are
> what I
> wanted. Right?
> If you still have other solutions that you think may
> generate more
> reliable results, I am eager to know. For instance, is there
> anyway to
> fit a model as we do for spmhrf or fslhrf, but just for the
> negative
> peak?
>
> Regards
>
> That's the problem Doug. I have already generated the FIR
> model but how
> can
> I show the sig MAP for one "particulat time point".  What
> are the other
> ways?
>
>
> On Wed, Apr 10, 2013 at 4:05 PM, Douglas N Greve
>  >wrote:
>
> Hi Shahin, there are several ways that you could do
> it. The one that
> immediately comes to mind is to use an FIR and then
> test for a
> difference
> at a particular post stimulus time point.
> doug
>
>
>
>
> On 04/10/2013 03:54 PM, SHAHIN NASR wrote:
>
> Hi,
>   I want to generate a map to show the
> significant difference
> between
> HRF undershoot  (negative peak of activity)
> between two conditions
> independent from the positive peak. Is there
> anyway, to generate this
> map?
>
> P.S.: Please note that I need a map and not a time
> course graph.
>
>
> --
> Shahin Nasr
>
> PhD in Cognitive Neuroscience
> Martinos Imaging Center, MGH
> Harvard Medical School
>
> --
> Douglas N. Greve, Ph.D.
> MGH-NMR Center
> gr...@nmr.mgh.harvard.edu
> 
> Phone Number: 617-724-2358 
> Fax: 617-726-7422 
>
> Bugs:
> surfer.nmr.mgh.harvard.edu/**fswiki/BugReporting
> 
> 
> FileDrop:
> www.nmr.mgh.harvard.edu/**facility/filedrop/index.html
> 
> 
> Outgoing:
> ftp://surfer.nmr.mgh.harvard.**edu/transfer/outgoing/flat/**
> greve/
> 
> 
>
>
>
>
> --
> Shahin Nasr
>
> PhD in Cognitive Neuroscience
> Martinos Imaging Center, MGH
> Harvard Medical School
>
>
>
> --
> Shahin Nasr
>
> PhD in Cognitive Neuroscience
> Martinos Imaging Center, MGH
> Harvard Medical School
> _

Re: [Freesurfer] Fwd: Comparing HRF undershoots between conditions

2013-04-24 Thread SHAHIN NASR 
Hi Doug,
Sorry to follow this topic with a delay but we tried to model BOLD
signal undershoot with a gamma function and we failed. The problem is,
gamma function generates positive values and we can NOT use "inverse gamma
function" (or otherfunction similar to that) as a part of mkanalysis-sess
(for modeling BOLD signal undershoot). We even used matlab gammafit to
estimate parameters and it said that values should be positive otherwise
gammafit function fails.
Do you have any suggestion?



On Wed, Apr 10, 2013 at 6:46 PM, Douglas N Greve
wrote:

>
> yes, that is what you want. The only other way that comes to mind is to
> model each event type as two event types one delayed relative to the other.
> Then model the responseto each as a gamma. If the delay is right, then the
> first gamma should model the main positive response and the second gamma
> will model the negative response. both will be independent from the other.
>
> doug
>
>
> On 04/10/2013 05:00 PM, sha...@nmr.mgh.harvard.edu wrote:
>
>> I think I figured it out but I want to double check. I am generating
>> group-average map for my subjects using isxconcat-sess command which
>> generates ces maps for each time frame. I think these maps are what I
>> wanted. Right?
>> If you still have other solutions that you think may generate more
>> reliable results, I am eager to know. For instance, is there anyway to
>> fit a model as we do for spmhrf or fslhrf, but just for the negative
>> peak?
>>
>> Regards
>>
>>  That's the problem Doug. I have already generated the FIR model but how
>>> can
>>> I show the sig MAP for one "particulat time point".  What are the other
>>> ways?
>>>
>>>
>>> On Wed, Apr 10, 2013 at 4:05 PM, Douglas N Greve
>>> **wrote:
>>>
>>>  Hi Shahin, there are several ways that you could do it. The one that
 immediately comes to mind is to use an FIR and then test for a
 difference
 at a particular post stimulus time point.
 doug




 On 04/10/2013 03:54 PM, SHAHIN NASR wrote:

  Hi,
>   I want to generate a map to show the significant difference
> between
> HRF undershoot  (negative peak of activity) between two conditions
> independent from the positive peak. Is there anyway, to generate this
> map?
>
> P.S.: Please note that I need a map and not a time course graph.
>
>
> --
> Shahin Nasr
>
> PhD in Cognitive Neuroscience
> Martinos Imaging Center, MGH
> Harvard Medical School
>
>  --
 Douglas N. Greve, Ph.D.
 MGH-NMR Center
 gr...@nmr.mgh.harvard.edu
 Phone Number: 617-724-2358
 Fax: 617-726-7422

 Bugs:
 surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
 
 >
 FileDrop:
 www.nmr.mgh.harvard.edu/facility/filedrop/index.html
 http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html>
 >
 Outgoing: ftp://surfer.nmr.mgh.harvard.***
 *edu/transfer/outgoing/flat/**
 greve/ 
 >




>>> --
>>> Shahin Nasr
>>>
>>> PhD in Cognitive Neuroscience
>>> Martinos Imaging Center, MGH
>>> Harvard Medical School
>>>
>>>
>>>
>>> --
>>> Shahin Nasr
>>>
>>> PhD in Cognitive Neuroscience
>>> Martinos Imaging Center, MGH
>>> Harvard Medical School
>>> __**_
>>> Freesurfer mailing list
>>> Freesurfer@nmr.mgh.harvard.edu
>>> https://mail.nmr.mgh.harvard.**edu/mailman/listinfo/**freesurfer
>>>
>>
>>
> --
> Douglas N. Greve, Ph.D.
> MGH-NMR Center
> gr...@nmr.mgh.harvard.edu
> Phone Number: 617-724-2358
> Fax: 617-726-7422
>
> Bugs: 
> surfer.nmr.mgh.harvard.edu/**fswiki/BugReporting
> FileDrop: 
> www.nmr.mgh.harvard.edu/**facility/filedrop/index.html
> Outgoing: ftp://surfer.nmr.mgh.harvard.**edu/transfer/outgoing/flat/**
> greve/ 
>
>
>


-- 
Shahin Nasr

PhD in Cognitive Neuroscience
Martinos Imaging Center, MGH
Harvard Medical School
___
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer


The information in this e-mail is intended only for the person to whom it is
addressed. If you believe this e-mail was sent to you in error and the e-mail
contains patient information, please contact the Partners Compliance HelpLine at
http://www.partners.org/complianceline . If the e-mail was sent

Re: [Freesurfer] smooth overlay

2013-04-24 Thread Douglas N Greve 
For each step each vertex is averaged with its nearest neighbor. If you 
use two steps, then this is done twice.
doug


On 04/24/2013 12:24 PM, Thomas Janssens wrote:
> Dear Freesurfers,
>
> During the display of my data in tksurfer I smoothed my overlay with 1 
> smoothing step (Tools > Surface > Smooth Overlay... ).
> All I could figure out was that this is done by sclv_smooth but what 
> is exactly happening mathematically in this case?
> What does 1 smoothing step correspond to?
>
> Thanks a lot for your help!
>
> Regards,
> Thomas Janssens
>
>
> Thomas Janssens, PhD student FWO
> Laboratorium voor Neuro- en Psychofysiologie
> K.U.Leuven Medical School
> Herestraat 49, B-3000 Leuven (Belgium)
> phone +32 16 33 00 35
> cell phone +32 494 115 509
> thom...@nmr.mgh.harvard.edu 
> thomas.janss...@med.kuleuven.be 
>
>
>
> ___
> Freesurfer mailing list
> Freesurfer@nmr.mgh.harvard.edu
> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

-- 
Douglas N. Greve, Ph.D.
MGH-NMR Center
gr...@nmr.mgh.harvard.edu
Phone Number: 617-724-2358
Fax: 617-726-7422

Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2
www.nmr.mgh.harvard.edu/facility/filedrop/index.html
Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/

___
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer


The information in this e-mail is intended only for the person to whom it is
addressed. If you believe this e-mail was sent to you in error and the e-mail
contains patient information, please contact the Partners Compliance HelpLine at
http://www.partners.org/complianceline . If the e-mail was sent to you in error
but does not contain patient information, please contact the sender and properly
dispose of the e-mail.

[Freesurfer] smooth overlay

2013-04-24 Thread Thomas Janssens 
Dear Freesurfers,

During the display of my data in tksurfer I smoothed my overlay with 1 
smoothing step (Tools > Surface > Smooth Overlay... ).
All I could figure out was that this is done by sclv_smooth but what is exactly 
happening mathematically in this case?
What does 1 smoothing step correspond to?

Thanks a lot for your help!

Regards,
Thomas Janssens


Thomas Janssens, PhD student FWO
Laboratorium voor Neuro- en Psychofysiologie
K.U.Leuven Medical School
Herestraat 49, B-3000 Leuven (Belgium)
phone +32 16 33 00 35
cell phone +32 494 115 509
thom...@nmr.mgh.harvard.edu
thomas.janss...@med.kuleuven.be

___
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer


The information in this e-mail is intended only for the person to whom it is
addressed. If you believe this e-mail was sent to you in error and the e-mail
contains patient information, please contact the Partners Compliance HelpLine at
http://www.partners.org/complianceline . If the e-mail was sent to you in error
but does not contain patient information, please contact the sender and properly
dispose of the e-mail.

Re: [Freesurfer] asegstats2table error depending on subject sorting

2013-04-24 Thread Douglas N Greve 

Hi Andreas, fsaverage does not have stats files so should cause it to 
crash. Are you saying that if you sort it in a certain way, you can get 
it to run with fsaverage?
doug


On 04/24/2013 09:51 AM, Andreas Berger wrote:
> Hi Surfers,
>
> as of version 5.2, i'm getting an error using asegstats2table, depending on
> how i sort the subjects:
>
>
> andreas@psy058:~$ asegstats2table --subjects $(ls $SUBJECTS_DIR | sort -t _ -k
> 1 -nk 2) -t segstats.csv --skip -d comma
> SUBJECTS_DIR : /mnt/raid/freesurfer/subjects
> Parsing the .stats files
> Skipping /mnt/raid/freesurfer/subjects/fsaverage/stats/aseg.stats
> Skipping /mnt/raid/freesurfer/subjects/lh.EC_average/stats/aseg.stats
> Skipping /mnt/raid/freesurfer/subjects/qdec/stats/aseg.stats
> Skipping /mnt/raid/freesurfer/subjects/rh.EC_average/stats/aseg.stats
> Traceback (most recent call last):
>File "/usr/local/freesurfer/bin/asegstats2table", line 553, in 
>  if(nmeasures != nmeasures0 and not options.common_flag and not
> options.all_flag):
> NameError: name 'nmeasures0' is not defined
>
>
> i don't get that error if i either:
> 1) remove the non-subjects (fsaverage, qdec, etc..) from the list, or:
> 2) do not sort the list like i do
>
>
> the subjects list is attached, sorted the way it produces the error
>
>
> greetings,
> Andreas
>
>
> ___
> Freesurfer mailing list
> Freesurfer@nmr.mgh.harvard.edu
> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

-- 
Douglas N. Greve, Ph.D.
MGH-NMR Center
gr...@nmr.mgh.harvard.edu
Phone Number: 617-724-2358
Fax: 617-726-7422

Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2
www.nmr.mgh.harvard.edu/facility/filedrop/index.html
Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/

___
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer


The information in this e-mail is intended only for the person to whom it is
addressed. If you believe this e-mail was sent to you in error and the e-mail
contains patient information, please contact the Partners Compliance HelpLine at
http://www.partners.org/complianceline . If the e-mail was sent to you in error
but does not contain patient information, please contact the sender and properly
dispose of the e-mail.

[Freesurfer] asegstats2table error depending on subject sorting

2013-04-24 Thread Andreas Berger 
Hi Surfers,

as of version 5.2, i'm getting an error using asegstats2table, depending on 
how i sort the subjects:


andreas@psy058:~$ asegstats2table --subjects $(ls $SUBJECTS_DIR | sort -t _ -k 
1 -nk 2) -t segstats.csv --skip -d comma
SUBJECTS_DIR : /mnt/raid/freesurfer/subjects
Parsing the .stats files
Skipping /mnt/raid/freesurfer/subjects/fsaverage/stats/aseg.stats
Skipping /mnt/raid/freesurfer/subjects/lh.EC_average/stats/aseg.stats
Skipping /mnt/raid/freesurfer/subjects/qdec/stats/aseg.stats
Skipping /mnt/raid/freesurfer/subjects/rh.EC_average/stats/aseg.stats
Traceback (most recent call last):
  File "/usr/local/freesurfer/bin/asegstats2table", line 553, in 
if(nmeasures != nmeasures0 and not options.common_flag and not 
options.all_flag):
NameError: name 'nmeasures0' is not defined


i don't get that error if i either:
1) remove the non-subjects (fsaverage, qdec, etc..) from the list, or:
2) do not sort the list like i do


the subjects list is attached, sorted the way it produces the error


greetings,
Andreas
fsaverage
lh.EC_average
qdec
rh.EC_average
H458_1Md
H458_2F
H458_2Fd
H458_3F
H458_4F
H458_4Fd
H458_5Fd
H458_5M
H458_6M
H458_6Md
H458_7F
H458_7Fd
H458_8Fd
H458_8M
H458_9F
H458_10Fd
H458_10M
H458_11Fd
H458_12F
H458_12Fd
H458_13M
H458_14Fd
P458_14M
H458_15F
H458_15Fd
H458_16M
H458_16Md
H458_17Md
H458_18M
P458_19F
H458_20F
H458_20Md
H458_21F
H458_21Md
H458_22M
H458_22Md
H458_23M
H458_23Md
H458_24M
H458_24Md
H458_25M
H458_25Md
P458_26M
P458_26Md
H458_27M
P458_27Md
P458_28F
P458_28Fd
H458_29M
P458_29Fd
H458_30F
P458_30Md
P458_31F
P458_31Md
H458_32F
P458_32Fd
P458_33Md
H458_34M
P458_34Fd
H458_35F
P458_35Md
P458_36F
P458_36Fd
P458_37Fd
P458_37M
P458_38Fd
P458_38M
P458_39F
P458_39Md
P458_40F
P458_40Fd
P458_41M
P458_41Md
P458_42Fd
P458_42M
P458_43F
P458_43Fd
P458_44Fd
P458_45F
P458_45Fd
P458_46M
H458_47M
P458_48F
P458_49M
P458_50F
H458_51Fd
P458_51F
H458_52F
H458_52Fd
H458_53Md
P458_53M
H458_54Fd
H458_55Md
P458_55M
H458_56M
H458_56Md
H458_57Fd
P458_57M
H458_58Fd
P458_58F
H458_59M
P458_60F
H458_61F
H458_61Fd
H458_62Fd
H458_62M
P458_64F
H458_65M
P458_65M
H458_66F
H458_67M
H458_68F
H458_69F
H458_70M
H458_71F
P458_72F
H458_73F
H458_74F
H458_75F
H458_76F
H458_77F
H458_78F
H458_79F
H458_81F
H458_82F
H458_84M
H458_86M
P458_87F
P458_88F
P458_90F
H458_91F
P458_92F
P458_93F
P458_94M
H458_95M
P458_96M
P458_97M
P458_98F
P458_99M
P458_100F
P458_101M
H458_102F
P458_105F
H458_107M
H458_108M
P458_109M
H458_110M
P458_111M
H458_112F
P458_113F
H458_114M
P458_115F
P458_116M
P458_117F
H458_118F
H458_119F
H458_120F
P458_121F
H458_122F
P458_123F
H458_127F
P458_129M
H458_130F
H458_131F
H458_132M
H458_133F
P458_134F
H458_135F
H458_137M
H458_138F
H458_139F
H458_141M
H458_142M
H458_143F
H458_144F
H458_145F
H458_146F
H458_147F
H458_148M
P458_149M
H458_151F
P458_152M
P458_153F
P458_155F
P458_156M
P458_157F
P458_158F
P458_159F
P458_161F
P458_162M
P458_163F
H458_164M
P458_165M
P458_166F
H458_167F
H458_168F
H458_171F
H458_172F
P458_173F
P458_175F
P458_176F
P458_177F
P458_178F
H458_180M
P458_181M
P458_183F
P458_184F
P458_185F
P458_186F
P458_187M
P458_188F
H458_189F
H458_190M
P458_191M
P458_192F
H458_193M
P458_194F
P458_195M
P458_196M
H458_197F
H458_198F
H458_199M
H458_200F
P458_201M
H458_202M
P458_203M
P458_204M
P458_205F
H458_206F
P458_207M
H458_208M
P458_210F
H458_211F
P458_212F
H458_214F
P458_215F
P458_216F
P458_217F
H458_218M
P458_219F
P458_220F
P458_221F
H458_224M
H458_225F
H458_226M
P458_227F
H458_228M
H458_229M
P458_230F
H458_232M
P458_233F
H458_234F
P458_235F
H458_236M
H458_238F
H458_240M
P458_244M
H458_245M
H458_250M
H458_251M
P458_253F
H458_254M
H458_256F
H458_257F
H458_258M
H458_260F
H458_261F
P458_262F
P458_263F
H458_264M
H458_265F
P458_266M
P458_267M
P458_268F
H458_269F
P458_270F
H458_271F
P458_272F
H458_274F
H458_275F
H458_276F
P458_277M
H458_279M
H458_280M
P458_281F
H458_282M
H458_283M
H458_284M
H458_285M
H458_286M
H458_287F
H458_288M
H458_289M
H458_290F
H458_291M
H458_292M
H458_293F
H458_294F
H458_295F
H458_296F
H458_297M
P458_298F
P458_299M
P458_300F
P458_301M
P458_302F
H458_304F
P458_305M
H458_306M
H458_307M
P458_308F
P458_309F
H458_310F
H458_311M
H458_312M
H458_313M
H458_314F
P458_315M
H458_316F
H458_317M
P458_318F
H458_319F
H458_320M
P458_321M
H458_322F
H458_324F
H458_325M
H458_327M
H458_328F
P458_329M
H458_330M
H458_331F
P458_332F
H458_333M
H458_334F
H458_335F
H458_336F
H458_338F
H458_339F
H458_340M
H458_341F
H458_342M
H458_343F
H458_344M
H458_345M
H458_346M
P458_347M
P458_348F
H458_349F
H458_350F
P458_351M
H458_352M
139_01F
139_02M
139_03M
139_04F
139_05F
139_07M
139_08M
139_09F
139_11M
139_12M
139_13M
139_14F
139_15F
139_16F
139_17F
139_18M
139_19F
139_20F
139_21M
139_22F
139_23M
139_24M
___
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer


The information in this e-mail is intended only for the person to whom it is
addressed. If you believe this e-mail was sent to you in error and the e-mail
co