[Freesurfer] converting .xfm to register.dat

Dear All Im trying to make a register.dat file by using tkregister2 --mov func.mnc --xfm your.xfm --s yoursubjectname --reg register.dat , but I get the following error message: tkregister2 --mov TDU__Blind_bef_JensenBruun_stat_TDU-Sens_TDU.mnc --xfm pet2tal.xfm --s jensen_ole_b --reg

Re: [Freesurfer] Does 'color scale bar' show the cortical thicknessor[-log10(p)]?

Hi, Jenni Hi, Nick Many thanks for your explanations. I agree with you that the inflated surface figure, the first figure of FsTutorial/Visualization, (https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/Visualization) constains information of the two groups' thickness But the descriptions

RE: [Freesurfer] Does 'color scale bar' show the cortical thicknessor[-log10(p)]?

Ruiwang, The first figure on the FsTutorial/Visualization page was made using a contrast of: (2) [0 0 1] for DOSS 'If you wanted to make a direct comparison between thickness and age, regardless of gender, you could use the contrast vector [0 0 1]' Therefore, the regions of

Re: [Freesurfer] Does 'color scale bar' show the cortical thicknessor[-log10(p)]?

Hi Jenni Great. Really thanks. Rhuang On Thursday 10 May 2007 13:45, you wrote: Ruiwang, The first figure on the FsTutorial/Visualization page was made using a contrast of: (2) [0 0 1] for DOSS 'If you wanted to make a direct comparison between thickness and age, regardless

[Freesurfer] intergroupavg-sess did not create a sig.bhdr file

To anyone not outside enjoying the nice weather, I have recently completed running intergroupavg-sess intergroupavg-sess -analysis taumax30_stc_smooth6 -contrast Rcue_v_Ncue -group1 LowTrauma -group2 HighTrauma -intergroup LowTrauma_v_HighTrauma -space tal Only 'minsig' and 'sig' files were

Re: [Freesurfer] converting .xfm to register.dat

can you send the matrix? On Thu, 10 May 2007 [EMAIL PROTECTED] wrote: Dear All Im trying to make a register.dat file by using tkregister2 --mov func.mnc --xfm your.xfm --s yoursubjectname --reg register.dat , but I get the following error message: tkregister2 --mov

Re: [Freesurfer] intergroupavg-sess did not create a sig.bhdr file

Create a sym link in your SUBJECTS_DIR from fsaverage to talairach doug Avram Holmes wrote: To anyone not outside enjoying the nice weather, I have recently completed running intergroupavg-sess intergroupavg-sess -analysis taumax30_stc_smooth6 -contrast Rcue_v_Ncue -group1 LowTrauma

Re: [Freesurfer] intergroupavg-sess did not create a sig.bhdr file

Doug, Sorry for the repeated questions. Could this be due to the fact that only the 'minsig' and 'sig' files were generated by intergroupavg-sess. I don't have any files like sig.bhdr. I had already managed to create a symlink to fsaverage called 'talairach' for an earlier stage in the analysis.

Re: [Freesurfer] intergroupavg-sess did not create a sig.bhdr file

Does talairach appear in your SUBJECTS_DIR? If not, then cd $SUBJECTS_DIR ln -s $FREESURFER_HOME/subjects/fsaverage . I would have thought that the .bhdr files would be there, but that might be another problem. doug Avram Holmes wrote: Doug, Sorry for the repeated questions. Could this

Re: [Freesurfer] mris_divide_parcellation

try chmod a+x mris_divide_parcellation Catherine Hartley wrote: Thanks! However when i try to execute the command, i get a message saying Permission denied. Any ideas? Thanks, Cate On May 10, 2007, at 5:30 PM, Doug Greve wrote: here you go ...

Fwd: [Freesurfer] mris_divide_parcellation

From: Catherine Hartley [EMAIL PROTECTED] Date: May 10, 2007 7:10:19 PM EDT To: Doug Greve [EMAIL PROTECTED] Subject: Re: [Freesurfer] mris_divide_parcellation then i get: Exec format error. Binary file not executable. [catemac:/Applications] cate% cd freesurfer/bin

Re: Fwd: [Freesurfer] mris_divide_parcellation

Catherine, It looks like you have a Mac. You can get mris_divide_parcellation for that here: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/fsdev/nicks/dev macppc directory is for the PowerPC, macintel dir is for the new Intel Macs. Nick On Thu, 2007-05-10 at 19:45 -0400, Catherine