Dear Matt, Thank you very much for your response.
So if we have a mask in the MNI space which we want to apply to the rsfMRI data, what can we do without having the coordinates of surface time-series? I mean, how we can infer the map from mask to the rsfMRI data. Best regards, Aslan On Wed, Jul 18, 2018 at 5:46 PM Glasser, Matthew <[email protected]> wrote: > 1. rfMRI_REST1_LR_Atlas_MSMAll_hp2000_clean.dtseries.nii > 2-3. 100307.L.midthickness_MSMAll.32k_fs_LR.surf.gii > > Note that the surface coordinates or only valid for single individuals. > There is no “standard space” (like MNI space) that properly lines up the > cortical areas, instead surface registration brings the data onto a > standard 32k mesh where vertex 1000 has the same neuroanatomical location > across subjects. You probably don’t actually need the surface coordinates > for your analysis unless you are doing something unusual. > > Peace, > > Matt. > > From: Aslan Satary Dizaji <[email protected]> > Date: Wednesday, July 18, 2018 at 12:57 AM > To: Matt Glasser <[email protected]> > Cc: "[email protected]" <[email protected]>, > Mohammad Reza Khodaei <[email protected]> > Subject: Re: [HCP-Users] The coordinates of surface time-series of > Resting State fMRI FIX-Denoised (Compact) > > Dear Matt, > > Thank you for your email. > > In "Resting State fMRI FIX-Denoised (Compact)" of 100 unrelated subjects, > inside folder "${StudyFolder}/${Subject}/MNINonLinear", there is only one > folder, "Results", which inside it there are four folders "rfMRI_REST1_LR", > "rfMRI_REST1_RL", "rfMRI_REST2_LR", "rfMRI_REST2_RL". And finally inside > each one of these folders, there are two "*.dtseries.nii" files and two > "*.dtscalar.nii" files. So basically, in "Resting State fMRI FIX-Denoised > (Compact)" of 100 unrelated subjects, there is not any folder with the name > of "fsaverage_LR32k". However, I checked the other data-sets of 100 > unrelated subjects, and I found that "Structural Preprocessed" of 100 > unrelated subjects has the "fsaverage_LR32k" folder with the files that > you mentioned. So my question is that, do we need to download this data-set > too so to be able to get the coordinates of surface time-series? > > Also, I have three other questions: > > 1) Which one of these "*.dtseries.nii" files do you recommend that we use: > > rfMRI_REST1_LR_Atlas_hp2000_clean.dtseries.nii > rfMRI_REST1_LR_Atlas_MSMAll_hp2000_clean.dtseries.nii > > 2) For example, for subject 100307 and for left hemisphere, which one of > these three "*.surf.gii" files do you recommend that we use: > > 100307.L.inflated.32k_fs_LR.surf.gii > 100307.L.midthickness.32k_fs_LR.surf.gii > 100307.L.very_inflated.32k_fs_LR.surf.gii > > 3) I assume that with "rfMRI_REST1_LR_Atlas_hp2000_clean.dtseries.nii", > we should use one of the three above "*.surf.gii" files and with " > rfMRI_REST1_LR_Atlas_MSMAll_hp2000_clean.dtseries.nii", we should use one > of the three below "*.surf.gii" files: > > 100307.L.inflated_MSMAll.32k_fs_LR.surf.gii > 100307.L.midthickness_MSMAll.32k_fs_LR.surf.gii > 100307.L.very_inflated_MSMAll.32k_fs_LR.surf.gii > > Am I right? > > Many many thanks in advance for your time and consideration. > > Best regards, > > Aslan > > > ------------------------------ > > The materials in this message are private and may contain Protected > Healthcare Information or other information of a sensitive nature. If you > are not the intended recipient, be advised that any unauthorized use, > disclosure, copying or the taking of any action in reliance on the contents > of this information is strictly prohibited. If you have received this email > in error, please immediately notify the sender via telephone or return mail. > _______________________________________________ HCP-Users mailing list [email protected] http://lists.humanconnectome.org/mailman/listinfo/hcp-users
