Ok, thanks and I will. How can I then obtain the medial wall indices? (I need them, for example, for visualization in Matlab, for also for some more specific analysis).
Rikkert On Wed, Aug 17, 2016 at 7:09 PM, Glasser, Matthew <[email protected]> wrote: > Okay I will make that documentation more explicit. Please use > ciftiopen/save/savereset. > > Thanks, > > Matt. > > From: "HINDRIKS, RIKKERT" <[email protected]> > Date: Wednesday, August 17, 2016 at 12:06 PM > To: Matt Glasser <[email protected]> > Cc: "Harms, Michael" <[email protected]>, "[email protected]" < > [email protected]> > > Subject: Re: [HCP-Users] read dtseries CIFTI into Matlab > > Hi Matthew, > > It is answer A of FAQ 2 on the HCP website. > > Even though it says that this is for MEG users, it documentation says that > it can load general CIFTI files. > > So than you can expect it to preserve the vertex ordering of rfmri data > right? > > Kind regards, > Rikkert > > > On Wed, Aug 17, 2016 at 6:55 PM, Glasser, Matthew <[email protected]> > wrote: > >> Out of curiosity, where are you reading that it is a good idea to use >> ft_read_cifti? That tool is compatible with field trip and MEG, but not, >> unfortunately, the HCP MRI data. >> >> Thanks, >> >> Matt. >> >> From: <[email protected]> on behalf of "Harms, >> Michael" <[email protected]> >> Date: Wednesday, August 17, 2016 at 8:53 AM >> To: "HINDRIKS, RIKKERT" <[email protected]>, " >> [email protected]" <[email protected]> >> Subject: Re: [HCP-Users] read dtseries CIFTI into Matlab >> >> >> Hi, >> ciftiopen.m is not intended to provide the medial wall vertices. >> >> Robert Oostenveld is to my knowledge the sole maintainer of the >> ft_read_cifti stuff, and I’m not sure whether it is still under active >> development. >> >> cheers, >> -MH >> >> -- >> Michael Harms, Ph.D. >> ----------------------------------------------------------- >> Conte Center for the Neuroscience of Mental Disorders >> Washington University School of Medicine >> Department of Psychiatry, Box 8134 >> 660 South Euclid Ave. Tel: 314-747-6173 >> St. Louis, MO 63110 Email: [email protected] >> >> From: <[email protected]> on behalf of "HINDRIKS, >> RIKKERT" <[email protected]> >> Date: Wednesday, August 17, 2016 at 8:41 AM >> To: "[email protected]" <[email protected]> >> Subject: [HCP-Users] read dtseries CIFTI into Matlab >> >> >> Dear HCP users, >> >> I have read the dtseries data from the Workbench Tutorial into Matlab >> using ft_read_cifti. >> Although the medial wall indices are in the right place, there appears to >> be something >> wrong with the ordering of the cortical vertices (see attached figure, >> which shows the >> first slice and should be the same as Figure 11 in the Workbench >> Tutorial). >> >> Alternatively, when I use the cifti_open command from wb_command, >> everything looks >> alright (see attached figure) but I had to manually insert the medial >> wall indices that I >> obtained from using fr_read_cifti. >> >> It would be very helpful if either someone could clarify why there seems >> to be something >> wrong with fr_read_cifti and/or include the medial wall indices in the >> output of cifti_open >> (for quick and easy visualization in Matlab). >> >> Kind regards, >> Rikkert Hindriks >> >> P.S. With all other file types in the tutorial dataset, ft_read_cifti >> seems to work alright. >> >> _______________________________________________ >> HCP-Users mailing list >> [email protected] >> 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 >> [email protected] >> 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. >> > > > ------------------------------ > > 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
