Hi list,
in reference to One Group (One Factor), Two Covariates
https://surfer.nmr.mgh.harvard.edu/fswiki/Fsgdf1G2V#Contrast2age.mtx
that has been applied on FS-FAST fcMRI data
I obtain three folder, respectively, for "main", "covariate 1", "covariate 2".
What's meaning the sig.nii.gz that it is produced by mri_glmfit in each folder? Please correct my conclusions if they are wrong.
1 - In the "Main" folder, the sig.nii.gz contains the results of One-sample t test regressing out the effect of the two covariates.
2 - In the "Covariate 1" folder, the sig.nii.gz contains the significant cluster that are associated with the covariate 1 regressing out the effect for the covariate 2.
3 - In the "Covariate 2" folder, the sig.nii.gz contains the significant cluster that are associated with the covariate 2 regressing out the effect for the covariate 1.
Thanks
Stefano
On 2/2/18 7:47 AM, stdp82@virgilio.it wrote:
Hi list,
in reference to One Group (One Factor), Two Covariates
https://surfer.nmr.mgh.harvard.edu/fswiki/Fsgdf1G2V#Contrast2age.mtx
that has been applied on FS-FAST fcMRI data
I obtain three folder, respectively, for "main", "covariate 1", "covariate 2".
What's meaning the sig.nii.gz that it is produced by mri_glmfit in each folder? Please correct my conclusions if they are wrong.
1 - In the "Main" folder, the sig.nii.gz contains the results of One-sample t test regressing out the effect of the two covariates.
Correct
2 - In the "Covariate 1" folder, the sig.nii.gz contains the significant cluster that are associated with the covariate 1 regressing out the effect for the covariate 2.
Yes (and the main)
3 - In the "Covariate 2" folder, the sig.nii.gz contains the significant cluster that are associated with the covariate 2 regressing out the effect for the covariate 1.
Yes (and regressing out the main)
Thanks
Stefano
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
I would like to find where the functional connectivity is correlated to VARIABLE 1 regressing out the VARIABLE 2.
How I should set my contrast.mtx?
Thanks
Stefano
Il 3 febbraio 2018 alle 19.57 Douglas Greve greve@nmr.mgh.harvard.edu ha scritto:
On 2/2/18 7:47 AM, stdp82@virgilio.it mailto:stdp82@virgilio.it wrote: > >Hi list, in reference to One Group (One Factor), Two Covariates https://surfer.nmr.mgh.harvard.edu/fswiki/Fsgdf1G2V#Contrast2age.mtx that has been applied on FS-FAST fcMRI data I obtain three folder, respectively, for "main", "covariate 1", "covariate 2". What's meaning the sig.nii.gz that it is produced by mri_glmfit in each folder? Please correct my conclusions if they are wrong. 1 - In the "Main" folder, the sig.nii.gz contains the results of One-sample t test regressing out the effect of the two covariates. > Correct> >2 - In the "Covariate 1" folder, the sig.nii.gz contains the significant cluster that are associated with the covariate 1 regressing out the effect for the covariate 2. > Yes (and the main)> >3 - In the "Covariate 2" folder, the sig.nii.gz contains the significant cluster that are associated with the covariate 2 regressing out the effect for the covariate 1. > Yes (and regressing out the main)> >Thanks Stefano _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu mailto:Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer 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.
If you have one class and two variables, then [0 1 0] and [0 0 1]
On 2/4/18 10:23 AM, stdp82@virgilio.it wrote:
I would like to find where the functional connectivity is correlated to VARIABLE 1 regressing out the VARIABLE 2.
How I should set my contrast.mtx?
Thanks
Stefano
Il 3 febbraio 2018 alle 19.57 Douglas Greve greve@nmr.mgh.harvard.edu ha scritto:
On 2/2/18 7:47 AM, stdp82@virgilio.it mailto:stdp82@virgilio.it wrote:
Hi list,
in reference to One Group (One Factor), Two Covariates
https://surfer.nmr.mgh.harvard.edu/fswiki/Fsgdf1G2V#Contrast2age.mtx
that has been applied on FS-FAST fcMRI data
I obtain three folder, respectively, for "main", "covariate 1", "covariate 2".
What's meaning the sig.nii.gz that it is produced by mri_glmfit in each folder? Please correct my conclusions if they are wrong.
1 - In the "Main" folder, the sig.nii.gz contains the results of One-sample t test regressing out the effect of the two covariates.
Correct
2 - In the "Covariate 1" folder, the sig.nii.gz contains the significant cluster that are associated with the covariate 1 regressing out the effect for the covariate 2.
Yes (and the main)
3 - In the "Covariate 2" folder, the sig.nii.gz contains the significant cluster that are associated with the covariate 2 regressing out the effect for the covariate 1.
Yes (and regressing out the main)
Thanks
Stefano
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu mailto:Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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.
Thanks.
Only for I quick check of my understanding, if I'm using:
FSGD File (g1v1.fsgd)
GroupDescriptorFile 1
Title OSGM
Class Main
Variables Age
Input subject1 Main 30
Input subject2 Main 40
.....
A) Contrast 1 (intercept.mtx) 1 0
B) Contrast 2 (slope.mtx) 0 1
Considering that my goal is to obtain a map reporting the significant clusters where the FC is positively/negatively associated with Age, is this contrast exact? Or it shows the clusters where la FC between seed and target regions is significant, regressing out the Age? This second case in not of my interest. Please suggest a way to reach the first case.
Thanks
Stefano
Il 5 febbraio 2018 alle 18.27 Douglas Greve greve@nmr.mgh.harvard.edu ha scritto:
If you have one class and two variables, then [0 1 0] and [0 0 1] On 2/4/18 10:23 AM, stdp82@virgilio.it mailto:stdp82@virgilio.it wrote: > >I would like to find where the functional connectivity is correlated to VARIABLE 1 regressing out the VARIABLE 2. How I should set my contrast.mtx? Thanks Stefano > > > Il 3 febbraio 2018 alle 19.57 Douglas Greve <greve@nmr.mgh.harvard.edu> mailto:greve@nmr.mgh.harvard.edu ha scritto:On 2/2/18 7:47 AM, stdp82@virgilio.it mailto:stdp82@virgilio.it wrote: > > > >Hi list, in reference to One Group (One Factor), Two Covariates https://surfer.nmr.mgh.harvard.edu/fswiki/Fsgdf1G2V#Contrast2age.mtx that has been applied on FS-FAST fcMRI data I obtain three folder, respectively, for "main", "covariate 1", "covariate 2". What's meaning the sig.nii.gz that it is produced by mri_glmfit in each folder? Please correct my conclusions if they are wrong. 1 - In the "Main" folder, the sig.nii.gz contains the results of One-sample t test regressing out the effect of the two covariates. > > > Correct> > > >2 - In the "Covariate 1" folder, the sig.nii.gz contains the significant cluster that are associated with the covariate 1 regressing out the effect for the covariate 2. > > > Yes (and the main)> > > >3 - In the "Covariate 2" folder, the sig.nii.gz contains the significant cluster that are associated with the covariate 2 regressing out the effect for the covariate 1. > > > Yes (and regressing out the main)> > > >Thanks Stefano _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu mailto:Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > >> >> > > _______________________________________________Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu mailto:Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer 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. > >>
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer 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.
The 2nd contrast (slope) is the one you want.
On 02/05/2018 01:21 PM, stdp82@virgilio.it wrote:
Thanks.
Only for I quick check of my understanding, if I'm using:
FSGD File (g1v1.fsgd)
GroupDescriptorFile 1
Title OSGM
Class Main
Variables Age
Input subject1 Main 30
Input subject2 Main 40
.....
A) Contrast 1 (intercept.mtx) 1 0
B) Contrast 2 (slope.mtx) 0 1
Considering that my goal is to obtain a map reporting the significant clusters where the FC is positively/negatively associated with Age, is this contrast exact? Or it shows the clusters where la FC between seed and target regions is significant, regressing out the Age? This second case in not of my interest. Please suggest a way to reach the first case.
Thanks
Stefano
Il 5 febbraio 2018 alle 18.27 Douglas Greve greve@nmr.mgh.harvard.edu ha scritto:
If you have one class and two variables, then [0 1 0] and [0 0 1]
On 2/4/18 10:23 AM, stdp82@virgilio.it mailto:stdp82@virgilio.it wrote:
I would like to find where the functional connectivity is correlated to VARIABLE 1 regressing out the VARIABLE 2.
How I should set my contrast.mtx?
Thanks
Stefano
Il 3 febbraio 2018 alle 19.57 Douglas Greve greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu ha scritto:
On 2/2/18 7:47 AM, stdp82@virgilio.it mailto:stdp82@virgilio.it wrote:
Hi list,
in reference to One Group (One Factor), Two Covariates
https://surfer.nmr.mgh.harvard.edu/fswiki/Fsgdf1G2V#Contrast2age.mtx
that has been applied on FS-FAST fcMRI data
I obtain three folder, respectively, for "main", "covariate 1", "covariate 2".
What's meaning the sig.nii.gz that it is produced by mri_glmfit in each folder? Please correct my conclusions if they are wrong.
1 - In the "Main" folder, the sig.nii.gz contains the results of One-sample t test regressing out the effect of the two covariates.
Correct
2 - In the "Covariate 1" folder, the sig.nii.gz contains the significant cluster that are associated with the covariate 1 regressing out the effect for the covariate 2.
Yes (and the main)
3 - In the "Covariate 2" folder, the sig.nii.gz contains the significant cluster that are associated with the covariate 2 regressing out the effect for the covariate 1.
Yes (and regressing out the main)
Thanks
Stefano
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu mailto:Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu mailto:Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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.
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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.
freesurfer@nmr.mgh.harvard.edu
-
Douglas Greve -
Douglas N Greve
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stdp82＠virgilio.it