To all, 1) For mapping FreeSurfer data to ‘fs_LR’ (Conte69) space we now recommend using a streamlined process described in: https://wiki.humanconnectome.org/display/PublicData/HCP+Users+FAQ#HCPUsersFAQ-9.HowdoImapdatabetweenFreeSurferandHCP? and the Resampling-FreeSurfer-HCP.pdf <https://wiki.humanconnectome.org/download/attachments/63078513/Resampling-FreeSurfer-HCP.pdf?version=1&modificationDate=1472225460934&api=v2> link contained therein. It uses wb_command (Connectome Workbench) and is especially appropriate for analyses involving HCP and HCP-style datasets.
2) For studies that still make use of data mapped to the PALS (74k) atlas, the relevant inter-atlas data files in SumsDB that were unavailable in July should now be accessible once again after an extended downtime. However, please be advised that the SumsDB database is ‘limping along’ and is no longer actively supported. 3) Going forward, we encourage Caret users to switch to Connectome Workbench (http://www.humanconnectome.org/software/connectome-workbench.html) and cifti/gifti file formats and to consider using the recently launched BALSA database (https://balsa.wustl.edu) for data sharing instead of SumsDB. David VE > On Jul 5, 2016, at 3:00 AM, Rouhollah Abdollahi <roohy...@gmail.com> wrote: > > Dear Dong, > > From what I know the ‘inter-atlas_deformation_maps’ transforming fsaverage( > num vertices: 163842) to PALS (84K) or CONTE69(164K). From what I see > fsaverage5: (num vertices: 10242) has less vertices which I think it is not > possible to use those transformation files. Donna or David may suggest a > solution. > My solution would be to regenerate everything on fsaverage then transform > them to caret Conte69 space. > > Best > Rouhi > > Best Regards > Rouhollah Abdollahi > > Institut für Neurowissenschaften und Medizin (INM-3) > Forschungszentrum Jülich > Leo-Brandt-Straße > 52425 Jülich, Germany > On Tue, Jul 5, 2016 at 4:37 AM, Dong Haoming <dongnan...@163.com > <mailto:dongnan...@163.com>> wrote: > Hi everyone, > > I am a newcomer to the caret and have some questions about the > transformation from Freesurfer files to the caret files. I have some fmri > maps processed by Freesurfer and try to transform them to the caret space. I > have found some previous mails about this issue: > http://www.mail-archive.com/caret-users%40brainvis.wustl.edu/msg02914.html > <http://www.mail-archive.com/caret-users%40brainvis.wustl.edu/msg02914.html>. > it is mentioned that the ‘inter-atlas_deformation_maps’ required for the > transformation. However, I can’t access the SumsDB database, is there any > solution to download these files? Besides, my fmri maps were generated in > fsaverage5 space, is there a deformation map for the fsaverage5 > transformation? > > Many thanks! > > Dong > > > > > _______________________________________________ > caret-users mailing list > email@example.com <mailto:firstname.lastname@example.org> > http://brainvis.wustl.edu/mailman/listinfo/caret-users > <http://brainvis.wustl.edu/mailman/listinfo/caret-users> > > > _______________________________________________ > caret-users mailing list > email@example.com > http://brainvis.wustl.edu/mailman/listinfo/caret-users
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