Hello Freesurfers,
I'm interested in creating a group map where each vertex represents the correlation (as a correlation coefficient) between a task-related BOLD contrast value (ces.nii.gz) and a single covariate. This is analogous to a cortical thickness GLM with one group and one covariate, but I'd want an r-map instead of a sig-map. How might I accomplish this? It appears that mri_glmfit generates sig-maps, gamma-maps, etc, but not r-maps.
Thanks in advance, Keji
Use this version of mri_glmfit. It will create a file called pcc.mgh. This is the partial correlation coefficient
https://gate.nmr.mgh.harvard.edu/safelinks/greve/mri_glmfit
On 11/17/2016 06:20 PM, Morenikeji Adebayo wrote:
Hello Freesurfers,
I'm interested in creating a group map where each vertex represents the correlation (as a correlation coefficient) between a task-related BOLD contrast value (ces.nii.gz) and a single covariate. This is analogous to a cortical thickness GLM with one group and one covariate, but I'd want an r-map instead of a sig-map. How might I accomplish this? It appears that mri_glmfit generates sig-maps, gamma-maps, etc, but not r-maps.
Thanks in advance, Keji
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Thanks, Doug!! I’ll give it a whirl.
On Nov 17, 2016, at 6:40 PM, Douglas N Greve greve@nmr.mgh.harvard.edu wrote:
Use this version of mri_glmfit. It will create a file called pcc.mgh. This is the partial correlation coefficient
https://gate.nmr.mgh.harvard.edu/safelinks/greve/mri_glmfit
On 11/17/2016 06:20 PM, Morenikeji Adebayo wrote:
Hello Freesurfers,
I'm interested in creating a group map where each vertex represents the correlation (as a correlation coefficient) between a task-related BOLD contrast value (ces.nii.gz) and a single covariate. This is analogous to a cortical thickness GLM with one group and one covariate, but I'd want an r-map instead of a sig-map. How might I accomplish this? It appears that mri_glmfit generates sig-maps, gamma-maps, etc, but not r-maps.
Thanks in advance, Keji
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/
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Hi there,
I’m having trouble running the script. Should I place the script in the $FSFAST/bin directory? Any advice on how to run the this version of mri_glmfit would be much appreciated.
Thanks, Keji
On Nov 17, 2016, at 6:48 PM, Morenikeji Adebayo keji@nmr.mgh.harvard.edu wrote:
Thanks, Doug!! I’ll give it a whirl.
On Nov 17, 2016, at 6:40 PM, Douglas N Greve greve@nmr.mgh.harvard.edu wrote:
Use this version of mri_glmfit. It will create a file called pcc.mgh. This is the partial correlation coefficient
https://gate.nmr.mgh.harvard.edu/safelinks/greve/mri_glmfit
On 11/17/2016 06:20 PM, Morenikeji Adebayo wrote:
Hello Freesurfers,
I'm interested in creating a group map where each vertex represents the correlation (as a correlation coefficient) between a task-related BOLD contrast value (ces.nii.gz) and a single covariate. This is analogous to a cortical thickness GLM with one group and one covariate, but I'd want an r-map instead of a sig-map. How might I accomplish this? It appears that mri_glmfit generates sig-maps, gamma-maps, etc, but not r-maps.
Thanks in advance, Keji
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/
Freesurfer mailing list 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
Hi there,
The new mri_glmfit script that I was directed to doesn’t create a file called “pcc.mgh.” It does create a file called “z.nii.gz” (as far as I can tell this file is the only difference between the old and new mri_glm fit scripts).
Is there another script that I should be using to generate the Pearson correlation maps?
Thanks! Keji
--- Morenikeji Adebayo Junior Research Fellow Department of Psychiatric Neuroscience Massachusetts General Hospital (p) 617.643.6347 keji@nmr.mgh.harvard.edu mailto:keji@nmr.mgh.harvard.edu
On Nov 17, 2016, at 6:48 PM, Morenikeji Adebayo <keji@nmr.mgh.harvard.edu mailto:keji@nmr.mgh.harvard.edu> wrote:
Thanks, Doug!! I’ll give it a whirl.
On Nov 17, 2016, at 6:40 PM, Douglas N Greve <greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu> wrote:
Use this version of mri_glmfit. It will create a file called pcc.mgh. This is the partial correlation coefficient
https://gate.nmr.mgh.harvard.edu/safelinks/greve/mri_glmfit https://gate.nmr.mgh.harvard.edu/safelinks/greve/mri_glmfit
On 11/17/2016 06:20 PM, Morenikeji Adebayo wrote:
Hello Freesurfers,
I'm interested in creating a group map where each vertex represents the correlation (as a correlation coefficient) between a task-related BOLD contrast value (ces.nii.gz) and a single covariate. This is analogous to a cortical thickness GLM with one group and one covariate, but I'd want an r-map instead of a sig-map. How might I accomplish this? It appears that mri_glmfit generates sig-maps, gamma-maps, etc, but not r-maps.
Thanks in advance, Keji
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
what is your command line and terminal output?
On 11/29/2016 01:24 PM, Morenikeji Adebayo wrote:
Hi there,
The new mri_glmfit script that I was directed to doesn’t create a file called “pcc.mgh.” It does create a file called “z.nii.gz” (as far as I can tell this file is the only difference between the old and new mri_glm fit scripts).
Is there another script that I should be using to generate the Pearson correlation maps?
Thanks! Keji
Morenikeji Adebayo Junior Research Fellow Department of Psychiatric Neuroscience Massachusetts General Hospital (p) 617.643.6347 keji@nmr.mgh.harvard.edu mailto:keji@nmr.mgh.harvard.edu
On Nov 17, 2016, at 6:48 PM, Morenikeji Adebayo <keji@nmr.mgh.harvard.edu mailto:keji@nmr.mgh.harvard.edu> wrote:
Thanks, Doug!! I’ll give it a whirl.
On Nov 17, 2016, at 6:40 PM, Douglas N Greve <greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu> wrote:
Use this version of mri_glmfit. It will create a file called pcc.mgh. This is the partial correlation coefficient
https://gate.nmr.mgh.harvard.edu/safelinks/greve/mri_glmfit
On 11/17/2016 06:20 PM, Morenikeji Adebayo wrote:
Hello Freesurfers,
I'm interested in creating a group map where each vertex represents the correlation (as a correlation coefficient) between a task-related BOLD contrast value (ces.nii.gz) and a single covariate. This is analogous to a cortical thickness GLM with one group and one covariate, but I'd want an r-map instead of a sig-map. How might I accomplish this? It appears that mri_glmfit generates sig-maps, gamma-maps, etc, but not r-maps.
Thanks in advance, Keji
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu mailto:Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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Hi,
I’m not sure if this is what you’re looking for but this is the command I ran:
/autofs/space/fatfriar_002/cluster/iaslab/NMASA/mri/func/encoding/adebayo/mri_glmfit --y ces.nii.gz --wls cesvar.nii.gz --fsgd /autofs/space/fatfriar_001/cluster/iaslab/NMASA/mri/func/encoding/adebayo/allVfix/fsgd_files/All_n109_NEUT_dassoc --surface fsaverage lh --glmdir glm_AvF_vs_dassoc_R --nii.gz --C /autofs/space/fatfriar_001/cluster/iaslab/NMASA/mri/func/encoding/adebayo/allVfix/group_contrasts/1_group_1cov_slope.group.m
And this is what’s in the output directory:
C.dat cnr.nii.gz efficiency.dat F.nii.gz gamma.nii.gz gammavar.nii.gz maxvox.dat sig.nii.gz z.nii.gz
Thanks, Keji
--- Morenikeji Adebayo Junior Research Fellow Department of Psychiatric Neuroscience Massachusetts General Hospital (p) 617.643.6347 keji@nmr.mgh.harvard.edu mailto:keji@nmr.mgh.harvard.edu
On Nov 29, 2016, at 1:39 PM, Douglas N Greve greve@nmr.mgh.harvard.edu wrote:
what is your command line and terminal output?
On 11/29/2016 01:24 PM, Morenikeji Adebayo wrote:
Hi there,
The new mri_glmfit script that I was directed to doesn’t create a file called “pcc.mgh.” It does create a file called “z.nii.gz” (as far as I can tell this file is the only difference between the old and new mri_glm fit scripts).
Is there another script that I should be using to generate the Pearson correlation maps?
Thanks! Keji
Morenikeji Adebayo Junior Research Fellow Department of Psychiatric Neuroscience Massachusetts General Hospital (p) 617.643.6347 keji@nmr.mgh.harvard.edu mailto:keji@nmr.mgh.harvard.edu <mailto:keji@nmr.mgh.harvard.edu mailto:keji@nmr.mgh.harvard.edu>
On Nov 17, 2016, at 6:48 PM, Morenikeji Adebayo <keji@nmr.mgh.harvard.edu mailto:keji@nmr.mgh.harvard.edu <mailto:keji@nmr.mgh.harvard.edu mailto:keji@nmr.mgh.harvard.edu>> wrote:
Thanks, Doug!! I’ll give it a whirl.
On Nov 17, 2016, at 6:40 PM, Douglas N Greve <greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu>> wrote:
Use this version of mri_glmfit. It will create a file called pcc.mgh. This is the partial correlation coefficient
https://gate.nmr.mgh.harvard.edu/safelinks/greve/mri_glmfit https://gate.nmr.mgh.harvard.edu/safelinks/greve/mri_glmfit
On 11/17/2016 06:20 PM, Morenikeji Adebayo wrote:
Hello Freesurfers,
I'm interested in creating a group map where each vertex represents the correlation (as a correlation coefficient) between a task-related BOLD contrast value (ces.nii.gz) and a single covariate. This is analogous to a cortical thickness GLM with one group and one covariate, but I'd want an r-map instead of a sig-map. How might I accomplish this? It appears that mri_glmfit generates sig-maps, gamma-maps, etc, but not r-maps.
Thanks in advance, Keji
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu mailto:Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu> Phone Number: 617-724-2358 Fax: 617-726-7422
Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/
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-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/
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The pcc calculation is turned off with --wls. I can't remember why I did it that way.
On 11/29/2016 02:50 PM, Morenikeji Adebayo wrote:
Hi,
I’m not sure if this is what you’re looking for but this is the command I ran:
/autofs/space/fatfriar_002/cluster/iaslab/NMASA/mri/func/encoding/adebayo/mri_glmfit --y ces.nii.gz --wls cesvar.nii.gz --fsgd /autofs/space/fatfriar_001/cluster/iaslab/NMASA/mri/func/encoding/adebayo/allVfix/fsgd_files/All_n109_NEUT_dassoc--surface fsaverage lh--glmdir glm_AvF_vs_dassoc_R --nii.gz --C /autofs/space/fatfriar_001/cluster/iaslab/NMASA/mri/func/encoding/adebayo/allVfix/group_contrasts/1_group_1cov_slope.group.m
And this is what’s in the output directory:
C.dat cnr.nii.gz efficiency.dat F.nii.gz gamma.nii.gz gammavar.nii.gz maxvox.dat sig.nii.gz z.nii.gz
Thanks, Keji
Morenikeji Adebayo Junior Research Fellow Department of Psychiatric Neuroscience Massachusetts General Hospital (p) 617.643.6347 keji@nmr.mgh.harvard.edu mailto:keji@nmr.mgh.harvard.edu
On Nov 29, 2016, at 1:39 PM, Douglas N Greve <greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu> wrote:
what is your command line and terminal output?
On 11/29/2016 01:24 PM, Morenikeji Adebayo wrote:
Hi there,
The new mri_glmfit script that I was directed to doesn’t create a file called “pcc.mgh.” It does create a file called “z.nii.gz” (as far as I can tell this file is the only difference between the old and new mri_glm fit scripts).
Is there another script that I should be using to generate the Pearson correlation maps?
Thanks! Keji
Morenikeji Adebayo Junior Research Fellow Department of Psychiatric Neuroscience Massachusetts General Hospital (p) 617.643.6347 keji@nmr.mgh.harvard.edu mailto:keji@nmr.mgh.harvard.edumailto:keji@nmr.mgh.harvard.edu
On Nov 17, 2016, at 6:48 PM, Morenikeji Adebayo <keji@nmr.mgh.harvard.edu mailto:keji@nmr.mgh.harvard.edumailto:keji@nmr.mgh.harvard.edu> wrote:
Thanks, Doug!! I’ll give it a whirl.
On Nov 17, 2016, at 6:40 PM, Douglas N Greve <greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edumailto:greve@nmr.mgh.harvard.edu> wrote:
Use this version of mri_glmfit. It will create a file called pcc.mgh. This is the partial correlation coefficient
https://gate.nmr.mgh.harvard.edu/safelinks/greve/mri_glmfit
On 11/17/2016 06:20 PM, Morenikeji Adebayo wrote: > Hello Freesurfers, > > I'm interested in creating a group map where each vertex > represents the correlation (as a correlation coefficient) between > a task-related BOLD contrast value (ces.nii.gz) and a single > covariate. This is analogous to a cortical thickness GLM with one > group and one covariate, but I'd want an r-map instead of a > sig-map. How might I accomplish this? It appears that mri_glmfit > generates sig-maps, gamma-maps, etc, but not r-maps. > > > > Thanks in advance, > Keji > > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > mailto:Freesurfer@nmr.mgh.harvard.edumailto:Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > >
-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edumailto:greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
Bugs:surfer.nmr.mgh.harvard.edu/fswiki/BugReporting http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop:https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/
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-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
Bugs:surfer.nmr.mgh.harvard.edu/fswiki/BugReporting http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop:https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing:ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/
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Ok - no problem. I’ll run again without -wls.
Thanks! Keji --- Morenikeji Adebayo Junior Research Fellow Department of Psychiatric Neuroscience Massachusetts General Hospital (p) 617.643.6347 keji@nmr.mgh.harvard.edu mailto:keji@nmr.mgh.harvard.edu
On Nov 29, 2016, at 2:52 PM, Douglas N Greve greve@nmr.mgh.harvard.edu wrote:
The pcc calculation is turned off with --wls. I can't remember why I did it that way.
On 11/29/2016 02:50 PM, Morenikeji Adebayo wrote:
Hi,
I’m not sure if this is what you’re looking for but this is the command I ran:
/autofs/space/fatfriar_002/cluster/iaslab/NMASA/mri/func/encoding/adebayo/mri_glmfit --y ces.nii.gz --wls cesvar.nii.gz --fsgd /autofs/space/fatfriar_001/cluster/iaslab/NMASA/mri/func/encoding/adebayo/allVfix/fsgd_files/All_n109_NEUT_dassoc--surface fsaverage lh--glmdir glm_AvF_vs_dassoc_R --nii.gz --C /autofs/space/fatfriar_001/cluster/iaslab/NMASA/mri/func/encoding/adebayo/allVfix/group_contrasts/1_group_1cov_slope.group.m
And this is what’s in the output directory:
C.dat cnr.nii.gz efficiency.dat F.nii.gz gamma.nii.gz gammavar.nii.gz maxvox.dat sig.nii.gz z.nii.gz
Thanks, Keji
Morenikeji Adebayo Junior Research Fellow Department of Psychiatric Neuroscience Massachusetts General Hospital (p) 617.643.6347 keji@nmr.mgh.harvard.edu mailto:keji@nmr.mgh.harvard.edu <mailto:keji@nmr.mgh.harvard.edu mailto:keji@nmr.mgh.harvard.edu>
On Nov 29, 2016, at 1:39 PM, Douglas N Greve <greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu>> wrote:
what is your command line and terminal output?
On 11/29/2016 01:24 PM, Morenikeji Adebayo wrote:
Hi there,
The new mri_glmfit script that I was directed to doesn’t create a file called “pcc.mgh.” It does create a file called “z.nii.gz” (as far as I can tell this file is the only difference between the old and new mri_glm fit scripts).
Is there another script that I should be using to generate the Pearson correlation maps?
Thanks! Keji
Morenikeji Adebayo Junior Research Fellow Department of Psychiatric Neuroscience Massachusetts General Hospital (p) 617.643.6347 keji@nmr.mgh.harvard.edu mailto:keji@nmr.mgh.harvard.edu <mailto:keji@nmr.mgh.harvard.edu mailto:keji@nmr.mgh.harvard.edu><mailto:keji@nmr.mgh.harvard.edu mailto:keji@nmr.mgh.harvard.edu>
On Nov 17, 2016, at 6:48 PM, Morenikeji Adebayo <keji@nmr.mgh.harvard.edu mailto:keji@nmr.mgh.harvard.edu <mailto:keji@nmr.mgh.harvard.edu mailto:keji@nmr.mgh.harvard.edu><mailto:keji@nmr.mgh.harvard.edu mailto:keji@nmr.mgh.harvard.edu>> wrote:
Thanks, Doug!! I’ll give it a whirl.
> On Nov 17, 2016, at 6:40 PM, Douglas N Greve > <greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu > <mailto:greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu><mailto:greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu>> > wrote: > > Use this version of mri_glmfit. It will create a file called pcc.mgh. > This is the partial correlation coefficient > > https://gate.nmr.mgh.harvard.edu/safelinks/greve/mri_glmfit https://gate.nmr.mgh.harvard.edu/safelinks/greve/mri_glmfit > > > > On 11/17/2016 06:20 PM, Morenikeji Adebayo wrote: >> Hello Freesurfers, >> >> I'm interested in creating a group map where each vertex >> represents the correlation (as a correlation coefficient) between >> a task-related BOLD contrast value (ces.nii.gz) and a single >> covariate. This is analogous to a cortical thickness GLM with one >> group and one covariate, but I'd want an r-map instead of a >> sig-map. How might I accomplish this? It appears that mri_glmfit >> generates sig-maps, gamma-maps, etc, but not r-maps. >> >> >> >> Thanks in advance, >> Keji >> >> >> >> _______________________________________________ >> Freesurfer mailing list >> Freesurfer@nmr.mgh.harvard.edu mailto:Freesurfer@nmr.mgh.harvard.edu >> <mailto:Freesurfer@nmr.mgh.harvard.edu mailto:Freesurfer@nmr.mgh.harvard.edu><mailto:Freesurfer@nmr.mgh.harvard.edu mailto:Freesurfer@nmr.mgh.harvard.edu> >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >> >> > > -- > Douglas N. Greve, Ph.D. > MGH-NMR Center > greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu > <mailto:greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu><mailto:greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu> > Phone Number: 617-724-2358 > Fax: 617-726-7422 > > Bugs:surfer.nmr.mgh.harvard.edu/fswiki/BugReporting > <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting> > FileDrop:https://gate.nmr.mgh.harvard.edu/filedrop2 http://gate.nmr.mgh.harvard.edu/filedrop2 > www.nmr.mgh.harvard.edu/facility/filedrop/index.html http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html > <http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html> > Outgoing: > ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu mailto:Freesurfer@nmr.mgh.harvard.edu > <mailto:Freesurfer@nmr.mgh.harvard.edu mailto:Freesurfer@nmr.mgh.harvard.edu> > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > >
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-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu> Phone Number: 617-724-2358 Fax: 617-726-7422
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-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
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Morenikeji Adebayo