Dear Rujing, After recon-all and qcache, for correlation analysis, I have performed qdec by using a matrix that contains NPS test, 3 nuisance factors and one groups.For groups analysis I have applied mri_glmfit as described in the guide. Nothing in particular.
Stefano
----Messaggio originale----
Da: charujing123@163.com
Data: 5-dic-2013 2.15
A: "stdp82"stdp82@virgilio.it, "freesurfer"freesurfer@nmr.mgh.harvard.edu
Ogg: Re: [Freesurfer] R: Re: R: Re: Linear regression
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Dear Stefano, I also want to make a correlation analysis between thickness and behavior data. Would you please send me your precious scripts for group analysis( unpaired t-test and correlation analysis) after recon-all? I want to study it if I get your permission. Thanks. All the best.
2013-12-05
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Rujing Zha
发件人：stdp82@virgilio.it 发送时间：2013-12-05 02:06 主题：[Freesurfer] R: Re: R: Re: Linear regression 收件人："greve"greve@nmr.mgh.harvard.edu,"freesurfer"freesurfer@nmr.mgh.harvard.edu 抄送：
Dear Douglas, thank you very much for you kind reply. In the paper I have 3 groups (2 diseases and 1 controls). I have performed cortical thickness analysis among groups, individuating relevant difference in the posterior regions. Next, for one group, I have used qdec to individuate statistically significant regions where NPS test scores and thickness were correlated. 3 nuisance factors was also added to regressor. All results were corrected for multiple comparisons by using a pre-cached cluster-wise Monte-Carlo Simulation. qdec analysis results have individuated a "composite region" (superior parietal cortex and precuneus) where NPS correlated with thinning. Now, if I understand, I should extract the mean thickness from superior parietal cortex and precuneus and I should perform a linear regression (and partial correlation) with an other statistical program (SPSS for example). Is there a better way to perform a regression the most possible similar to qdec computation?
Stefano
----Messaggio originale---- Da: greve@nmr.mgh.harvard.edu Data: 4-dic-2013 17.35 A: stdp82@virgilio.it, freesurfer@nmr.mgh.harvard.edu Ogg: Re: R: Re: [Freesurfer] Linear regression
On 12/02/2013 03:14 PM, stdp82@virgilio.it wrote:
Tank you very much.
A-Do you
mean the partial correlation coeff (PCC) at each voxel
averaged over
region?
Finally a linear regression is done between cortical thickness
of a
composite region and NPS. However the authors discuss every
individual
region as related to disease. So a table with partials
correlations of
individuals ROIs with NPS seems useful to support the
discussion. What did you do in the paper? The reviewer mentions a "composite
region". Did you average the thickness over that region and then do the
regression with NPS?
B- I'd like to obtain the covariance
matrix of the regression made
between cortical thickness, group and
covariates. How can I do it?
I'm not sure what you mean. Would this be a
different matrix for each
vertex? I cite the referee: "The
authors must provide the covariance matrix of
the regression made
between cortical thickness, group and covariates
as supplementary
information in order to increase the value of the
results."
Sorry, I don't understand what the reviewer is asking for. doug
I
don't have Matlab for mri_glmfit_pcc matlab.
Stefano
----Messaggio
originale----
Da: greve@nmr.mgh.harvard.edu Data: 2-dic-2013
20.47
A: freesurfer@nmr.mgh.harvard.edu Ogg: Re:
[Freesurfer] Linear regression
On 12/02/2013 02:22 PM,
stdp82@virgilio.it wrote:
Hi list,
I have
some questions, please.
I performed linear regression
by qdec to find the regions where the
cortical thinning correlates
with neuropsychological test (NPS),
taking in account 3 nuisance
factors.
A- I individuated some posterior regions and
now I'd like to build a
table with partials correlations of
individuals ROIs with NPS. How can
I obtain the values for each
region?
Do you mean the partial correlation coeff (PCC) at each voxel
averaged
over region? You can get PCC maps using the mri_glmfit_pcc
matlab
command. You can then do the averaging over region using
mri_segstats.
B- I'd like to obtain the covariance
matrix of the regression made
between cortical thickness,group and
covariates. How can I do it?
I'm not sure what you mean. Would this be a
different matrix for each
vertex?
C- Is there
a specific reference for qdec?
No, it is just a GLM so any GLM reference
will do.
Thank you very much,
Stefano
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