Hi Doug, Yes. I am using FSFAST for the analysis, and I do have all conditions in each run. Can you elaborate more why the higher level analysis is going to be tricky? What is wrong with loading the beta regressors from each run and building the contrast by averaging same beta regressors from different runs?
-- Shay On Thu, Mar 10, 2011 at 2:02 PM, Douglas N Greve <gr...@nmr.mgh.harvard.edu> wrote: > Are you using FSFAST? It does not load all the data into memory, only one at > a time. It does make sense to do an individual run analysis (assuming you > have all conditions in each one). You can run selxavg3-sess with the > -per-run option. The higher level analysis is going to be a little bit > tricker. > > > doug > > Shay Ohayon wrote: >> >> Hi All, >> >> We are trying to speed things up in our functional analysis pipeline, >> and I wanted to consult with the experts here about the following >> suggestion... >> >> At the moment, we typically collect multiple runs per subject (say, >> 10-20). >> We usually then run pre-processing on each run, and then do >> first-order analysis on all available runs. >> This step is obviously a bottleneck because all runs need to be loaded >> to memory and the analysis takes a long time. >> >> As an alternative, we were thinking about doing 1st order analysis on >> each individual run, and then combine >> them somehow using 2nd order group analysis. >> >> My silly questions are: >> 1. Does this workflow make sense? >> 2. How should we go about and do this? >> My initial thought was to use mri_glmfit, and to build a 4D volume >> that will contain the beta's of interest from each individual 1st >> order analysis. >> >> Thanks, >> >> -- Shay >> _______________________________________________ >> 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: www.nmr.mgh.harvard.edu/facility/filedrop/index.html > > > > 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
