;>>> or is it allowed to do this instead of using tools like palm (what
>>>> happens eg with the covariates when using forced permutation)? I
>>>> used forced permutation and it seemed to work, results were (partly)
>>>> comparable to what I found with mo
if you just don't do anything.
> >>>
> >>>
> >>> On 08/29/2016 11:07 AM, maaike rive wrote:
> >>>> Hi all,
> >>>>
> >>>>
> >>>> Is using forced permutation for non-orthogonal design matrices wrong
> &
ools like palm (what
>>>> happens eg with the covariates when using forced permutation)? I
>>>> used forced permutation and it seemed to work, results were (partly)
>>>> comparable to what I found with monte carlo simulations.
>>>>
>>>>
&g
ed permutation)? I
>>> used forced permutation and it seemed to work, results were (partly)
>>> comparable to what I found with monte carlo simulations.
>>>
>>>
>>> Thanks, Maaike
>>>
>>>
>>>--
o simulations.
>>>
>>>
>>> Thanks, Maaike
>>>
>>>
>>>------------
>>> *Van:* freesurfer-boun...@nmr.mgh.harvard.edu
>>> <freesurfer-boun...@nmr.mgh.ha
-
>> *Van:* freesurfer-boun...@nmr.mgh.harvard.edu
>> <freesurfer-boun...@nmr.mgh.harvard.edu> namens Harms, Michael
>> <mha...@wustl.edu>
>> *Verzonden:* vrijdag 26 augustus 2016 01:00:13
&g
arvard.edu> namens Harms, Michael
> <mha...@wustl.edu>
> *Verzonden:* vrijdag 26 augustus 2016 01:00:13
> *Aan:* Freesurfer support list
> *Onderwerp:* Re: [Freesurfer] mri_glmfit-sim permutation testing
> running after 3 days!
>
> Hi,
> You might want to check out FSL
edu>
> *Verzonden:* vrijdag 26 augustus 2016 01:00:13
> *Aan:* Freesurfer support list
> *Onderwerp:* Re: [Freesurfer] mri_glmfit-sim permutation testing
> running after 3 days!
>
> Hi,
> You might want to check out FSL’s PALM tool, which has a bit more
> sophisticate
support list
Onderwerp: Re: [Freesurfer] mri_glmfit-sim permutation testing running after 3
days!
Hi,
You might want to check out FSL’s PALM tool, which has a bit more sophisticated
permutation framework, and allows for permutation in the context of
non-orthogonal covariates.
cheers,
-MH
--
M
Something strange is going on in your data. You are using fsaverage, but
the size of the data in PDvsMCI_lh_thickness_10mm/y.mgh does not match
(it has 148278 vertices, not 163842 of fsaverage). This is causing the
processes to die, but the backgrounding software does not know that the
process
Can you tar up the glmdir and drop it to me at our filedrop (link
below)? Also,what version of FS are you using? Also, can you try running
it without backgrounding on a few (say, 100) iterations to see if it
completes? Then try with backgrounding (problem may be backgrounding)
On 08/25/2016
Hi Freesurfer Experts,
I am trying to use freesurfer's mri_glmfit-sim tool to run permutation
testing on cortical thickness data (as recommended by Doug in my previous
post:
http://www.mail-archive.com/freesurfer%40nmr.mgh.harvard.edu/msg48653.html )
Most of the tutorials I found were not
12 matches
Mail list logo
