---------- Forwarded message ---------- From: Yizhou Ma <maxxx...@umn.edu> Date: Sun, Mar 22, 2015 at 4:56 PM Subject: Re: [HCP-Users] CIFTIOPEN: NaN values in .dscalar.nii not read To: "Glasser, Matthew" <glass...@wusm.wustl.edu>
Hi Matthew, I am trying to calculate the correspondence between the HCP ICA parcellations with other parcellations (e.g. Yeo 2011, Power 2011). It is ciftiopen that is giving me 91282 grayordinates. Best, Cherry On Sun, Mar 22, 2015 at 4:52 PM, Glasser, Matthew <glass...@wusm.wustl.edu> wrote: > For ft_read_cifti, that sounds like a bug, as there are only a total of > 91282 grayordinates at 2mm spacing (the medial wall is not defined in the > CIFTI standard grayordinates space). As far as matching the dlabel files > with the rest of the CIFTI files, it is true that you need to remove the > medial wall (and they don’t include any subcortical structures either). > What is it that you are trying to do with the dlabel files? > > Peace, > > Matt. > > From: Yizhou Ma <maxxx...@umn.edu> > Date: Sunday, March 22, 2015 at 4:44 PM > To: "hcp-users@humanconnectome.org" <hcp-users@humanconnectome.org> > Subject: [HCP-Users] CIFTIOPEN: NaN values in .dscalar.nii not read > > Dear HCP experts, > > I'd like to report what seems to me a problem with ciftiopen. When I > opened a .dscalar.nii file with ft_read_cifti, I got 96854 grayordinates. > Yet when I used ciftiopen, I got 91282 grayordiantes. It seems to me that > ciftiopen automatically left out where there is a "NaN" in the .dscalar > file. This has been a problem for me since I've been trying to use some of > the .dlabel files offered by HCP, which come with 64984 surface > grayordinates when opened with ciftiopen, medial wall included. It took me > a while to realize that my results are not matching up because the > discorrespondence in indices. > > Given that ciftiopen does not read the labelnames and label values from > cifti files, I think it can be confusing when it left out "NaN" values on > the medial wall when reading .dscalar files. > > Best, > Cherry > > _______________________________________________ > HCP-Users mailing list > HCP-Users@humanconnectome.org > http://lists.humanconnectome.org/mailman/listinfo/hcp-users > > > ------------------------------ > > 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 HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users
