Juke,
Currently, that is not an option in OrthoView. It should be added in a
future release.
If you would like to do small-volume corrections, I'd recommend the
peak_nii toolbox. Also, update SPM8 to latest release as there is bug
fix for small volume corrections.
I should also note that the FDR correction only uses the voxels with
the same size as you are viewing. In peak_nii, the FDR will be the
same as SPM8. We are currently comparing these two approaches.
Best Regards, Donald McLaren
=================
D.G. McLaren, Ph.D.
Postdoctoral Research Fellow, GRECC, Bedford VA
Research Fellow, Department of Neurology, Massachusetts General Hospital and
Harvard Medical School
Website: http://www.martinos.org/~mclaren
Office: (773) 406-2464
=====================
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On Fri, Apr 6, 2012 at 10:31 AM, Juke Cha <[log in to unmask]> wrote:
> That helped. minN was set to 2.
> One quick question, in the orthoview I assume one can correct the results
> just by clicking FDR button. Is it possible to correct within a ROI
> specified?
>
>
> Thanks,
> Juke
>
>
> On Mon, Apr 2, 2012 at 3:00 PM, MCLAREN, Donald <[log in to unmask]>
> wrote:
>>
>> Juke,
>>
>> Please try rerunning with I.DoOnlyAll field set to 1. This will help us to
>> figure out what are the potential sources of the error. Also,
>> please let us know the version of MATLAB that you are using and what value
>> you had used for minN. Also, please make sure you are using the latest
>> version of the scripts.
>>
>> We have noticed that setting minN to a small number can dramatically slow
>> down the computations of repeated-measure designs.
>>
>> Best Regards, Donald McLaren
>> =================
>> D.G. McLaren, Ph.D.
>> Postdoctoral Research Fellow, GRECC, Bedford VA
>> Research Fellow, Department of Neurology, Massachusetts General Hospital
>> and
>> Harvard Medical School
>> Website: http://www.martinos.org/~mclaren
>> Office: (773) 406-2464
>> =====================
>> This e-mail contains CONFIDENTIAL INFORMATION which may contain PROTECTED
>> HEALTHCARE INFORMATION and may also be LEGALLY PRIVILEGED and which is
>> intended only for the use of the individual or entity named above. If the
>> reader of the e-mail is not the intended recipient or the employee or
>> agent
>> responsible for delivering it to the intended recipient, you are hereby
>> notified that you are in possession of confidential and privileged
>> information. Any unauthorized use, disclosure, copying or the taking of
>> any
>> action in reliance on the contents of this information is strictly
>> prohibited and may be unlawful. If you have received this e-mail
>> unintentionally, please immediately notify the sender via telephone at
>> (773)
>> 406-2464 or email.
>>
>>
>>
>>
>> On Mon, Apr 2, 2012 at 2:35 PM, Juke Cha <[log in to unmask]> wrote:
>>>
>>>
>>> Dear Drs. McDonald and Schultz
>>>
>>> I've been running a mixed design ANOVA using the GLM_FLEX. I have 54
>>> subjects in two groups and each has three conditions (a with-in subjects
>>> factor). I followed what you described in the example model in the website.
>>>
>>> The code's been running fine, except that it keep warning "The error term
>>> was not estimated for this data set". Now I'm concerned if the code somehow
>>> fell into a infinite loop or something, since it's still running after 60
>>> hours of computation. Again the only message it's generating is about the
>>> unestimated error terms. Could you please me know if I've missed something
>>> here? Or it just takes that long with such a model?
>>>
>>>
>>> Regards,
>>> Juke
>>
>>
>
>
>
> --
> Juke Cha, M.S.
> Ph.D Candidate, Program in Neuroscience
> Laboratory for Computational Neurodiagnostics (LCN)
> Dept of Biomedical Engineering
> Stony Brook University School of Medicine
> email: [log in to unmask]
> office: 631-632-1992
> fax: 631-632-3222
>
> "I have power over the world" [John 16:33]
>
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