Re: [Freesurfer] Checking optseq efficiency of a custom par file.

[MCLAREN, Donald]

You need to build a wrapper that creates all possible combinations of the
three sets of par files.

Then use this to build a design matrix for each one.

Then estimate the efficiency (eff) and VRF (vrf) for the contrasts of
interest.

M = C*inv(X'*X)*C';
eff = 1/trace(M);
vrf = 1/mean(diag(M));


Hope this helps.


Best Regards,
Donald McLaren, PhD


On Fri, Oct 16, 2015 at 1:34 PM, Sam Zorowitz  wrote:

> Dear Freesurfer list,
>
> Using the optseq2 program, is it possible to calculate the efficiency of a
> custom par file? I have an fMRI task that will be split into three blocks.
> I want to calculate the overall efficiency of my overall design
> byconcatenating the best par file from optimizing each individual block. I
> have already tried doing so by concatenating the three par files (updating
> the onset times) and inputting this into optseq2 by:
>
> >> optseq2 --in new_file.par --nosearch --tr 1.75 --ntp 1080 --psdwin 0
> 3.5 1.75 --o new_dir
>
> If I do this, however, I get a "core dump" error. Does anyone know how I
> might going about doing this? I've attached the new_par file for
> convenience.
>
> Best,
> sam
>
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[Freesurfer] Checking optseq efficiency of a custom par file.

[Sam Zorowitz]

Dear Freesurfer list,

Using the optseq2 program, is it possible to calculate the efficiency of a
custom par file? I have an fMRI task that will be split into three blocks.
I want to calculate the overall efficiency of my overall design
byconcatenating the best par file from optimizing each individual block. I
have already tried doing so by concatenating the three par files (updating
the onset times) and inputting this into optseq2 by:

>> optseq2 --in new_file.par --nosearch --tr 1.75 --ntp 1080 --psdwin 0 3.5
1.75 --o new_dir

If I do this, however, I get a "core dump" error. Does anyone know how I
might going about doing this? I've attached the new_par file for
convenience.

Best,
sam


new_file.par
Description: Binary data
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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.