Hi Takeshi: I believe you can remove the -D flag too, since you're modeling
the overall mean already in your design. (Or alternatively, keep the -D and
remove EV1) Just a redundancy though, and shouldn't alter any results.
John Colby
MD/PhD Student
Developmental Cognitive Neuroimaging Lab
David Geffen School of Medicine at UCLA
On Tue, 23 Dec 2008 12:35:51 +0000, Steve Smith <[log in to unmask]> wrote:
>HI - no, not quite. You should:
> - subtract the average of EV2 from it (i.e. "demean" it).
> - set the contrasts to [0 1] and [0 -1].
>Steve.
>
>
>On 22 Dec 2008, at 21:46, SUBSCRIBE FSL takeshiasami wrote:
>
>> Dear FSL users,
>>
>> I'm a beginner of TBSS(v1.2) and now planning to do correlation
>> analysis
>> between FA values and clinical measurements (positive and negative
>> correlation) in the patients group. I learned how to do it from this
>> year's
>> FSL mailing list, but I don't have enought confidence. Please check
>> my method.
>>
>> 1. creating skeletons (mean_FA, all_FA, etc) with 5 patients.
>> 2. creating desgin matrix and contrast using Glm window.
>>
>> [EVs]tag
>>
>> Number of main EVs: 2
>> Number of additional, voxel-dependent EVs: 0
>>
>> Group EV1 EV2
>> Input1 1 1 23
>> Input2 1 1 14
>> Input3 1 1 8
>> Input4 1 1 36
>> Input5 1 1 44
>>
>> *The numbers in EV2 column are clinical mesurement.
>>
>> [Contrasts & F-tests]tag
>>
>> Contrasts: 2, F-test: 0,
>>
>> Title EV1 EV2
>> C1 positive correlation 1 1
>> C2 negative correlation 1 -1
>>
>> 3. running randomise software
>>
>> randomise -i all_FA_skeletonised -o tbss -m mean_FA_skeleton_mask -d
>> design.mat -t design.con -n 500 -D --T2 -V
>>
>>
>> Is it OK?
>>
>> Sincerelly,
>>
>> Takeshi Asami
>>
>
>
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>Associate Director, Oxford University FMRIB Centre
>
>FMRIB, JR Hospital, Headington, Oxford OX3 9DU, UK
>+44 (0) 1865 222726 (fax 222717)
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