Hi Antonelle, the way you have have it set up, C = [+1 -1] will be positive (red) for Class1>Class2 and negative (blue) for Class2>Class1. Your fsgd file looks ok.
doug Antonella Kis wrote: > Hi Doug and many thanks for your reply and help. If blue means neg, > red/yellow is positive does this means that where is blue we have a > decrease in FA for while positive means an increase? > How I know if there is a decrease in controls versus patients and not > opposite (FA decreases in patients versus controls)? > > Is my C = +1.00000 -1.00000 correct if I am interested only in group > differences and I want to eliminate the age. > > Also can you please take a look on my y (please see the attached file) > to confirm if is correct? > > > Thank you very much and have a great weekend! > Antonella > ------------------------------------------------------------------------ > *From:* Douglas N Greve <gr...@nmr.mgh.harvard.edu> > *To:* Antonella Kis <ator...@yahoo.com>; freesurfer > <freesurfer@nmr.mgh.harvard.edu> > *Sent:* Friday, January 13, 2012 2:13 PM > *Subject:* Re: Fw: [Freesurfer] FA and non_FA group analysis > > Look at the original sig map. This will be signed (blue and > red/yellow), with blue being neg, red/yellow being positive. > doug > > Antonella Kis wrote: > > Dear Doug, > > > > I am forwarding Bruce answer to my question since he directed me to you. > > > > I need some help regarding my FA and non-FA group analysis study. I > am not using tracula. I used the dt_recon and I have done the > registration for my FA data on the cvs space using the > mri_cvs_register. I used the GLM group analysis method after I > concatenate FA from individuals into one file and used mri_glmfit-sim > with the option grf as you recommended me some time ago: > > > > mri_glmfit-sim \ > > --glmdir Group_Analysis.glmdir \ > > --grf 2 neg \ > > --cwpvalthresh .025 \ > > --overwrite > > to cache the significant clusters after multiple comparisons so I > have the uncorrected and corrected significant map but I don't know > how I can see if my FA is increasing or decreasing in controls > > group versus patients group. > > > > I will appreciate any help/suggestion. > > > > Thank you. > > Antonella > > > > ----- Forwarded Message ----- > > *From:* Bruce Fischl <fis...@nmr.mgh.harvard.edu > <mailto:fis...@nmr.mgh.harvard.edu>> > > *To:* Antonella Kis <ator...@yahoo.com <mailto:ator...@yahoo.com>> > > *Cc:* "freesurfer@nmr.mgh.harvard.edu > <mailto:freesurfer@nmr.mgh.harvard.edu>" > <freesurfer@nmr.mgh.harvard.edu <mailto:freesurfer@nmr.mgh.harvard.edu>> > > *Sent:* Thursday, January 12, 2012 11:16 AM > > *Subject:* Re: [Freesurfer] FA and non_FA group analysis > > > > Hi Antonella > > > > I think this is a question for Doug. > > > > > > cheers > > Bruce > > On Thu, 12 Jan 2012, Antonella Kis > > wrote: > > > > > > > > > > > Dear Bruce, > > > > > > Once again many thanks for helping.I am not using tracula. I used > the dt_recon and I have done the registration for my FA data on the > cvs space using the mri_cvs_register. I used the GLM group > > > analysis method after I concatenate FA from individuals into one > file and used > > > > > > > > > mri_glmfit-sim \ > > > --glmdir Group_Analysis.glmdir \ > > > --grf 2 neg \ > > > --cwpvalthresh .025 \ > > > --overwrite > > > > > > to cache the significant clusters after multiple comparisons so I > have the uncorrected and corrected significant map but I don't know > how I can see if my FA is increasing or decreasing in controls > > > group versus patients group. > > > > > > > > > Please advise me. > > > > > > Thank you. > > > Antonella > > > > > > > > > > > > > > > > > > > > > > > _______________________________________________ > > 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 > > > > > > 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. > > > > > > -- Douglas N. Greve, Ph.D. > MGH-NMR Center > gr...@nmr.mgh.harvard.edu <mailto:gr...@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: www.nmr.mgh.harvard.edu/facility/filedrop/index.html > <http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html> > > > -- Douglas N. Greve, Ph.D. MGH-NMR Center gr...@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
