External Email - Use Caution Thank you very much for both of your answers. I haven't been able to download the Power parcellation from BALSA webpage, even though I registered to the site, it doesn't allow to download, so I sent an email to the technical team. Once I download it I will follow the instructions Matt sent. Thank you very much indeed.
Mina On Mon, Apr 8, 2019 at 10:24 PM Glasser, Matthew <glass...@wustl.edu> wrote: > External Email - Use Caution > > An updated version of the Power parcellation is available on the FS_LR > atlas mesh in the BALSA database: > > https://balsa.wustl.edu/file/show/JX5V > > You can run FreeSurfer on your subject¹s T1w images and then either bring > the data onto FS_LR or the atlas onto fsaverage using the instructions > available here: > > https://www.google.com/url?sa=t&rct=j&q=&esrc=s&source=web&cd=1&cad=rja&uac > t=8&ved=2ahUKEwiOhOXxtsHhAhWBTd8KHXH7CgkQFjAAegQIABAC&url=https%3A%2F%2Fwik > <https://www.google.com/url?sa=t&rct=j&q=&esrc=s&source=web&cd=1&cad=rja&uact=8&ved=2ahUKEwiOhOXxtsHhAhWBTd8KHXH7CgkQFjAAegQIABAC&url=https%3A%2F%2Fwik> > i.humanconnectome.org > %2Fdownload%2Fattachments%2F63078513%2FResampling-Free > Surfer-HCP.pdf&usg=AOvVaw2wx1IdlCJFJxczsj8QEw4l > > No need to worry about the limitations of MNI space that Bruce mentions. > > Matt. > > On 4/8/19, 3:40 PM, "freesurfer-boun...@nmr.mgh.harvard.edu on behalf of > Bruce Fischl" <freesurfer-boun...@nmr.mgh.harvard.edu on behalf of > fis...@nmr.mgh.harvard.edu> wrote: > > >Hi Mina > > > >I'm not sure about the Power atlas question, but for us the best thing to > >do is stay as close to the scanner data as possible. Ideally dicoms that > >came off the scanner, but alternatively nifti images made from them. > >Transforming to MNI coords will reduce your effective resolution, and > >inverse transforming will reduce it again, so I definitely wouldn't do > >that. > > > >cheers > >Bruce > > On Mon, 8 Apr 2019, Mina Shire wrote: > > > >> > >> External Email - Use Caution > >> > >> Dear All, > >> I know it is a very basic question but I would really appreciate if I > >>can get any support for source > >> or recommendations about how could I extract custom atlas based surface > >>segmentation using Power et > >> al(2011) atlas please. > >> > >> Thank you very much in advance, > >> > >> Mina > >> > >> On Thu, Apr 4, 2019 at 3:22 PM Mina Shire <minashir...@gmail.com> > wrote: > >> Dear All, > >> I would like to extract cortical envelop from my subjects T1 images to > >>use later on for a > >> source reconstruction in on their EEG data. I would like to use Power > >>et al (2011)'s atlas > >> with 264 regions. I am pretty new to Freesurfer and my search through > >>the mailing list and > >> tutorials confused me very much. So I would really appreciate if anyone > >>could explain using a > >> custom atlas to me or direct me to the sources that I can follow > >>please. > >> > >> So I have 2 questions regarding that. > >> 1. Is there any chance that you could direct me step by step how to do > >>this with Freesurfer. > >> > >> > >> 2. While I am running extraction with Freesurfer, should I be using ROI > >>nifti files in MNI > >> coordinate or should I be using ROI nifti files that were inverse > >>normalised to subject's > >> native space? > >> > >> I would really appreciate if you could help me with this please. > >> > >> Thank you very much in advance > >> > >> Kind regards > >> Mina > >> > >> > > > ________________________________ > 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. > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >
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