Dear all,
I have resting state data. The .txt file with my confounds contains 6
columns for motion parameters (I had to calculate the confounds with SPM
since that is the program that is used in the clinic where I work), a
linear trend and a quadratic trend.
Since the input in MELODIC is a nifti file, I would like to use a Nifti
file in which correction for these confounds is already applied.
(According to standard GLM: X=mu*M+gamma*G+noise, in which M are the
predictors and G the confounders. Mu and gamma are estimated and I would
like to have a corrected version of the data: X*=X-gamma*G).
Do you know how I can obtain this? Or do you know how motion parameters
or other confounds are usually taken into account when applying ICA on
resting state datasets?
Thank you!
Debby
-----Original Message-----
From: FSL - FMRIB's Software Library [mailto:[log in to unmask]] On
Behalf Of Benjamin Kay
Sent: Monday, September 12, 2011 12:58 PM
To: [log in to unmask]
Subject: Re: [FSL] Where to preprocess resting state data for ICA?
On Monday, September 12, 2011 05:34:29 you wrote:
> Dear FSL users,
> I would like to perform ICA on resting state data. However, I would
like to
> correct for some confounders (a .txt file exists of all the
confounders I
> would like to use). When I use FEAT for this, the program asks a model
> setup for a standard GLM analysis, but off course I don't have any
> predictors since it is resting state data. Can somebody please tell me
> where I can make FSL correct for my confounders? Thank you in advance.
> Kind regards,
> Debby
Dear Debby,
When I think of confounds, I usually think of high-level statistics. In
what
sense do you think FSL should be correcting for them during
preprocessing?
With regards to statistical inference on the results of ICA you may find
what
you're looking for in the Post-Stats section of the Melodic GUI or else
here:
http://www.fmrib.ox.ac.uk/analysis/dualreg/
If you tell us a bit more about your experiment, i.e. what are your
confounds,
what kind of ICA are you doing (tensor vs temporal concatenation), etc.,
someone may be able to give you more specific advice.
Benjamin
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