Unless you specifically need them for an individual, you should get them from lh.lh-rh.thickness.mgh because that data is sampled onto the symmetric template and so should be unbiased (ie, it will not systematically favor lh or rh). doug
On 03/26/2013 12:40 PM, Gabriel Gonzalez Escamilla wrote: > Dear Doug, > > I meant of a given subject, > > But, As I'm thinking about this, I'm wondering if it has sense to have > left and right cortical thickness of my every individual subjects, or > if I should obtain the lh-rh thickness differences for the individuals? > > I suppose that I should read the lh.lh-rh.thickness.mgh created by > mris_preproc to get the average differences in lh-rh hemispheres. > > > > Regards, > Gabriel > > > > > El 25/03/13, *Douglas N Greve * <gr...@nmr.mgh.harvard.edu> escribió: >> >> Do you mean you want the right hemi thicknesses on the left hemisphere >> of a given subject or on the fsaverage_sym? >> doug >> >> >> On 03/25/2013 11:25 AM, Gabriel Gonzalez Escamilla wrote: >> > Thank you, so I'm keeping the one I had. >> > >> > Sorry for my bad explanation. When I do a normal cortical thickness >> > study, I know the average thickness for a label, e.g. cortex, and the >> > values at each vertex of each hemisphere are stored in >> > $subject/surf/?l.thickness. I would like to know if it is possible to >> > obtain the same cortical thickness measure from the lh-rh registered >> > hemispheres of each subject. >> > >> > >> > Regards, >> > Gabriel >> > >> > >> > El 25/03/13, *Douglas N Greve * <gr...@nmr.mgh.harvard.edu> escribió: >> >> >> >> On 03/25/2013 10:52 AM, Gabriel Gonzalez Escamilla wrote: >> >> >Thanks a lot for your answer, >> >> > >> >> >I'm sending you attached the diff of the two mris_preproc. >> >> Those differences are just added features and won't change your >> results. >> >> > >> >> >When I wrote CT, I was meaning cortical thickness, as normally this >> >> values are in surf/?h.thickness, But how do I know the >> >> Xhemi-registered thickness values of each subject for lh-rh, or area >> >> or any of those indices? >> >> I'm not sure what you mean. When you run mris_preproc, you specify >> >> whether you want thickness, etc. >> >> doug >> >> > >> >> >Regards, >> >> >Gabriel >> >> > >> >> > >> >> >El 25/03/13, *Douglas N Greve * <gr...@nmr.mgh.harvard.edu> escribió: >> >> >> >> >> >>On 03/22/2013 06:45 AM, Gabriel Gonzalez Escamilla wrote: >> >> >>> Dear Doug, >> >> >>> >> >> >>> I've seen that you restore the files to download, for the Xhemi >> >> >>> registration. While I'm checking for the statistical process, I've >> >> >>> seen that the one I have is: Date: 2012/12/06 16:06:52, Revision: >> >> >>> 1.59.2.4, and the one that is on your ftp server is Date: >> 2012/12/06 >> >> >>> 16:06:17, Revision: 1.66, So mine is a lower version but >> recent hour, >> >> >>> and the actual is newer version but seems that was created >> before the >> >> >>> one I have. My question is, Which one should I keep? >> >> >>Can you send me a diff of the two files? >> >> >>> >> >> >>> If I change the mris_precproc version. Shall I re-run this step >> >> >>> before statistical analyses, to create a new >> >> lh.lh-rh.thickness.sm00.mgh? >> >> >>> >> >> >>> On the other hand I have some doubts about the statistical >> procedure. >> >> >>> It's supposed that if I apply the Xhemi registration, as >> result the >> >> >>> left and right hemispheres are equals to each other on every >> >> subject, so: >> >> >>> >> >> >>> A) Where can I get the CT values after the Xhemi registration to >> >> >>> FSaverage_sym for the left and right hemispheres? >> >> >>what are CT values? >> >> >>> >> >> >>> >> >> >>> B) Given that I have two groups, Patients and Control, with two >> >> levels >> >> >>> each, i.e male-female (Gp1male Gp1female Gp2male Gp2female >> >> >>> Gp1maleVar1 Gp1femaleVar1 Grp2maleVar1 Grp2femaleVar1), and that >> >> I can >> >> >>> set the contrasts and fsgd files as with a normal CT analisis, but >> >> >>> only on my lh.lh-rh.thickness.smXX.mgh, wich is suppose to >> >> contain the >> >> >>> left-right differences across subjects, right? >> >> >>> >> >> >>> Wich would be the right interpretation? of: >> >> >>The interpretation does not really change because it is a xhemi >> >> analysis >> >> >>> >> >> >>> 1) 5 .5 -.5 -.5 0 0 0 0 >> >> >>Is the L-R difference between Grp1 and Grp2 different than 0 >> >> (regressing >> >> >>out Var1 and gender) >> >> >>> >> >> >>> 2) 5 -.5 .5 -.5 0 0 0 0 >> >> >>Is the L-R difference between Males and Females different than 0 >> >> >>(regressing out Var1 and Group) >> >> >>> >> >> >>> 3) 0 0 0 0 .5 .5 -.5 -.5 >> >> >>Does the slope of the L-R difference with Var1 differ between >> Grp1 and >> >> >>Grp2(regressing out gender) >> >> >>> >> >> >>> 4) 0 0 0 0 5 -.5 .5 -.5 >> >> >>Does the slope of the L-R difference with Var1 differ between >> Male and >> >> >>Female(regressing out group) >> >> >>> >> >> >> >> >> >>> >> >> >>> >> >> >>> >> >> >>> Many thanks in advanced. >> >> >>> Gabriel. >> >> >> >> >> >>-- >> >> >>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 >> >> >>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 >> >> >> >> >> >> >> >> >>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. >> >> >> >> >> > >> >> >-- >> >> >-------------------------- >> >> >PhD. student Gabriel González-Escamilla >> >> >Laboratory of Functional Neuroscience >> >> >Department of Physiology, Anatomy, and Cell Biology >> >> >University Pablo de Olavide >> >> >Ctra. de Utrera, Km.1 >> >> >41013 - Seville >> >> >- Spain - >> >> > >> >> >Email: ggon...@upo.es >> >> >http://www.upo.es/neuroaging/es/ >> >> >> >> -- >> >> 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 >> >> Outgoing: >> ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ >> >> >> > >> > -- >> > -------------------------- >> > PhD. student Gabriel González-Escamilla >> > Laboratory of Functional Neuroscience >> > Department of Physiology, Anatomy, and Cell Biology >> > University Pablo de Olavide >> > Ctra. de Utrera, Km.1 >> > 41013 - Seville >> > - Spain - >> > >> > Email: ggon...@upo.es >> > http://www.upo.es/neuroaging/es/ >> >> -- >> 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 >> 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 > > -- > -------------------------- > PhD. student Gabriel González-Escamilla > Laboratory of Functional Neuroscience > Department of Physiology, Anatomy, and Cell Biology > University Pablo de Olavide > Ctra. de Utrera, Km.1 > 41013 - Seville > - Spain - > > Email: ggon...@upo.es > http://www.upo.es/neuroaging/es/ > > > -- > -------------------------- > PhD. student Gabriel González-Escamilla > Laboratory of Functional Neuroscience > Department of Physiology, Anatomy, and Cell Biology > University Pablo de Olavide > Ctra. de Utrera, Km.1 > 41013 - Seville > - Spain - > > Email: ggon...@upo.es > http://www.upo.es/neuroaging/es/ -- 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 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
