Hello Doug, Thank you for your quick replies to my queries. Really appreciate it.
I have found the files containing the cortical thickness values. Thank you. I assume that the order in which they follow are based on the fsgd file and the cluster annotation numbers. I was just slightly confused about the residual fwhm. I have already done a smoothing of 15 on the file and have recieved a residual value of 47, which I assume is extremely large. Since I'm finding out values for the entire cortex I cannot do a glmfit-sim as there are no fwhm cache values of 47. Could you please tell me what the residual values mean? What do you recommend I do? Is there anything I can read up on to find out more about this? (Please pardon my questions if they seem a little trivial) Thank you Joshua On Sun, Jun 2, 2013 at 11:33 PM, Douglas Greve <gr...@nmr.mgh.harvard.edu>wrote: > > This file is always created by mri_glmfit-sim. It might be named something > different depending on your parameters (should always end in y.ocn.dat) > doug > > > On 6/2/13 3:57 AM, Joshua deSouza wrote: > > Hi Doug, > > This file that your saying, will be created after glmfit-sim is done > using the cache function and a threshold of 1.3 and absolute ,with y being > the fsgd file? Am I understanding this correctly? > > Thank you > > Joshua > > On Sat, Jun 1, 2013 at 12:14 AM, Douglas N Greve < > gr...@nmr.mgh.harvard.edu> wrote: > >> There should be a file called something like cache.th13.abs.y.ocn.dat. >> This will have a column for each cluster and a row for each subject. The >> value in the row will be the input for each subject. >> doug >> >> On 05/30/2013 11:21 PM, Joshua deSouza wrote: >> > Hello everyone, >> > >> > Please pardon my rather simple question >> > >> > I have done a GLM fit anlysis and have obtained a file sig.mgh alonf >> > with a few others after the analysis.As I know, I do not have to >> > create ROIs in order to do this. I also understand that doing a >> > multiple comparison analysis just compares the regions of importance >> > and evaluates them giving the most resilient cluster depending on the >> > threshold. So, this does not give a thickness estimate. I would like >> > to know how do I get the cortical thickness values from the results? >> > If so, can I do it after glmfit? >> > >> > And thanks Doug for your help in the other questions that I had prior >> > to this! >> > >> > Thank you >> > >> > >> > _______________________________________________ >> > 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 >> gr...@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 >> >> >> 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. >> >> > >
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