Ok, I have previously created these group specific concatenations, but not with the -hrf flag. Would I need to reconcatenate them with this flag or does your method not require it?
-Adam > Create two contrasts, A-vs-fixation and B-vs-fixation, then run > isxconcat-sess separately for each group. This will create ces files for > each contrast. There will be a ces file for each time point in the FIR; > each of these will have a frame for all the members of the group. > > 1. Compute the mean of each time point > mri_concat ces.000.nii --mean --o mean.ces.000.nii > ... > 2. Concat all the means into a single file: > mri_concat mean.ces.???.nii --o all.mean.ces.nii > > This will give you 4 mean files, one for each group/condition. > Concatenate them together: > mri_concat g1/A/all.mean.ces.nii g1/B/all.mean.ces.nii > g2/A/all.mean.ces.nii g2/B/all.mean.ces.nii --o g1A.g1B.g2A.g2B.nii > > Now run > > beta2sxa -b g1A.g1B.g2A.g2B.nii --nc 4 --nper Ntp --o > h.g1A.g1B.g2A.g2B.nii > > where "--nc 4" is the four waveforms (2 groups * 2 conditions) and Ntp > is the number of time points in each waveform. > > you can then run > > tksurfer fsaverage lh inflated -t h.g1A.g1B.g2A.g2B.nii > > or tkmedit if these are volumes. > > doug > > > Adam Nitenson wrote: >> Yes, exactly...and if possible A1, A2, B1, and B2 simultaneously. >> >> -Adam >> >> >>> Do you mean something like you have two conditions (say A and B) and >>> two >>> groups (say 1 and 2), you want to plot A1 and A2 instead of just A and >>> B? >>> >>> Adam Nitenson wrote: >>> >>>> Hello Freesurfers, >>>> >>>> I'm been experimenting with creating timecourses for tksurfer and >>>> tkmedit using the -hrf flag. However I've noticed that the h.nii files >>>> created provide the HDR timecourse are only based on the original >>>> analysis under which isxconcat-sess was run (in my case, error vs >>>> correct). I was wondering if there was a way to tailor the timecourse >>>> in such a way that, instead of plotting only the conditions of the >>>> analysis, it would plot lines based on subject groups (e.g. Patients >>>> and Controls from an fsgd file). >>>> >>>> Basically, is there a way that I can create an HDR timecourse plot >>>> that can separate the data by groups that I can designate depending on >>>> the type of anlaysis I wish to conduct? >>>> >>>> Thanks! >>>> >>>> Adam Nitenson, B.S. >>>> Brain Genomics Lab >>>> Massachusetts General Hospital >>>> _______________________________________________ >>>> 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 >>> >>> >>> >>> >> >> >> Adam Nitenson, B.S. >> Brain Genomics Lab >> Massachusetts General Hospital >> >> >> > > -- > 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 > > > Adam Nitenson, B.S. Brain Genomics Lab Massachusetts General Hospital _______________________________________________ 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.
