That should be fine. Just make it clear to the reviewer that the
inferences are from the clusters and the r-values are provided for
those who want to see the r-value.
Best Regards, Donald McLaren
=================
D.G. McLaren, Ph.D.
Research Fellow, Department of Neurology, Massachusetts General Hospital and
Harvard Medical School
Postdoctoral Research Fellow, GRECC, Bedford VA
Website: http://www.martinos.org/~mclaren
Office: (773) 406-2464
=====================
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On Fri, Aug 10, 2012 at 12:06 PM, Rosalia Dacosta <[log in to unmask]> wrote:
> Yes,
>
> Its clearer now. I only want to get r values for those clusters which have
> reached statistical significance after multiple comparisons
> (TFCE-corrected).
>
> Cheers,
>
> Rosalia.
>
> 2012/8/10 MCLAREN, Donald <[log in to unmask]>
>>
>> There are two options:
>> (1) Use the tmap to compute the r-values and report the peak r-value:
>> fslmaths tmap -sqr tmap_sqr
>> fslmaths tmap_sqr -add N tmap_sqr_df
>> fslmaths tmap_sqr -div tmap_sqr_df -sqrt rvalue
>>
>> *N should be replaced by the df.
>>
>> (2) Use SPSS to determine the r-value of the cluster. The caveat is
>> that you shouldn't base your inferences on the r-value here because
>> you've used the data to select the region. However, it is useful for
>> people who require an r or r-squared value on a plot. The concern is
>> that if your cluster is not significant after correcting for multiple
>> comparisons AND you use SPSS to find the r-value and determine its
>> significant, then you would have a biased result. The important thing
>> to understand is that your inferences about correlation of a cluster
>> should be based on the maps and the thresholded map, while the r-value
>> can be reported via SPSS. Because you are not making inferences on the
>> SPSS results, you will not be at risk for double dipping.
>>
>> Hope this clarifies the concern
>>
>>
>> Best Regards, Donald McLaren
>> =================
>> D.G. McLaren, Ph.D.
>> Research Fellow, Department of Neurology, Massachusetts General Hospital
>> and
>> Harvard Medical School
>> Postdoctoral Research Fellow, GRECC, Bedford VA
>> 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 Fri, Aug 10, 2012 at 11:40 AM, Rosalia Dacosta <[log in to unmask]>
>> wrote:
>> > Dear Donald,
>> >
>> > Because I need the correlation value (r). With cluster I only get the
>> > size
>> > of the cluster, the significance 1-P and the MNI coordinates (anatomical
>> > region)...but what about r value?
>> >
>> > Warm regards,
>> >
>> > Rosalia.
>> > 2012/8/10 MCLAREN, Donald <[log in to unmask]>
>> >
>> >> I'm not quite sure why you'd need SPSS, unless your trying to get the
>> >> cluster average. Once you have the T-map, you can get the r-value for
>> >> every voxel. The cluster correlations should not be used to make the
>> >> conclusions as you have basically thresholded the data, so it would be
>> >> considered double-dipping.
>> >>
>> >>
>> >> Best Regards, Donald McLaren
>> >> =================
>> >> D.G. McLaren, Ph.D.
>> >> Research Fellow, Department of Neurology, Massachusetts General
>> >> Hospital
>> >> and
>> >> Harvard Medical School
>> >> Postdoctoral Research Fellow, GRECC, Bedford VA
>> >> 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 Fri, Aug 10, 2012 at 11:32 AM, Rosalia Dacosta <[log in to unmask]>
>> >> wrote:
>> >> > Dear Tibor,
>> >> >
>> >> > Thank you very much :)
>> >> >
>> >> > Rosalia.
>> >> >
>> >> > 2012/8/10 Auer, Tibor <[log in to unmask]>
>> >> >
>> >> >> Dear Rosalia,
>> >> >>
>> >> >>
>> >> >>
>> >> >> Yes.
>> >> >>
>> >> >>
>> >> >>
>> >> >> Cheers,
>> >> >>
>> >> >>
>> >> >>
>> >> >> Auer, Tibor M.D. Ph.D.
>> >> >>
>> >> >> Biomedizinische NMR Forschungs GmbH
>> >> >>
>> >> >> am Max-Planck Institut für Biophysikalische Chemie
>> >> >>
>> >> >> Am Fassberg 11
>> >> >>
>> >> >> 37077 Göttingen
>> >> >>
>> >> >> Germany
>> >> >>
>> >> >> Phone/Work: +49-(0)551-201-1725
>> >> >>
>> >> >> Phone/Home: +49-(0)551-387-0076
>> >> >>
>> >> >> Mobile: +49-(0)176-8012-7921
>> >> >>
>> >> >> Mail: [log in to unmask]
>> >> >>
>> >> >>
>> >> >>
>> >> >> From: FSL - FMRIB's Software Library [mailto:[log in to unmask]] On
>> >> >> Behalf
>> >> >> Of Rosalia Dacosta
>> >> >> Sent: Friday, August 10, 2012 5:14 PM
>> >> >> To: [log in to unmask]
>> >> >> Subject: Re: [FSL] A little problem with correlations with Melodic
>> >> >>
>> >> >>
>> >> >>
>> >> >> Dear Tibor,
>> >> >>
>> >> >>
>> >> >>
>> >> >> Many thanks for your reply. I am going to try now.
>> >> >>
>> >> >>
>> >> >>
>> >> >>
>> >> >>
>> >> >> Once I have done this, is it right to do cluster, flsmaths and
>> >> >> fslmeants
>> >> >> to get the values for every subject and then introduce them to SPSS
>> >> >> in
>> >> >> order
>> >> >> to get the r value?
>> >> >>
>> >> >>
>> >> >>
>> >> >> Warm regards,
>> >> >>
>> >> >>
>> >> >>
>> >> >> Rosalia.
>> >> >>
>> >> >>
>> >> >
>> >> >
>> >> >
>> >
>> >
>> >
>> >
>> >
>
>
>
>
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