[Freesurfer] isxconcat-sess question..

Hi, Is there a way to use" isxconcat-sess" to average monkey fMRI data? i.e. I have two groups of monkeys (say, test and control groups) and I want to do group analysis on their data.. Regards, krishna ___ Freesurfer mailing list Freesurfer@

[Freesurfer] aligning functionals to anatomicals

Hi, I have a question regarding overlay of functional activations on a freesurfer map. After much work, I flattened my monkey brain. But, I just realized that the input volume , which I used to generate the flat maps, had orientation set to LIA. I want to over lay my functional activations, whi

[Freesurfer] averaging fMRI data across multiple scan sessions

Hi, We had collected a lot of data in our first few scan sessions trying different TR/TE/voxel size/REPs combinations in order to get the optimal values. Now, I would like to do a joint analysis of all those scans. Is it possible ? regards, Krishna _

[Freesurfer] using old GE data to run FSFAST

Hi, I have some fMRI data which i collect from GE signa 3T machine. I have the data in two formats : (1) IMA format ( where each run is a directory like "01.SER" and each such directory has separate files for each acquisition i.e. if I had 150 acquisitions, I have 150 .IMA files (2) I also

[Freesurfer] Error while registering functionals to anatomicals

Hi, I am getting an error if I try to register my functionals to anatomical image (using spmregister-sess command). It is looking for file 'subjectname'. Here are the steps I did before coming across this error. Did I miss anything? step 1 : unpacking data (unpacksdcmdir command) step 2 : run m

Re: [Freesurfer] memory alloc problem in mri_fwhm

Hi, "all.nii" takes 1309 MB. I have 4 GB RAM and a 80 GB HDD. regards, Krishna Douglas N Greve wrote: how big is all.nii and how much memory do you have on that computer? Krishna Srihasam wrote: Hi, I am analyzing my fMRI data and I got a memory alloc problem in "mri_f

[Freesurfer] memory alloc problem in mri_fwhm

Hi, I am analyzing my fMRI data and I got a memory alloc problem in "mri_fwhm" The exact message is : mri_fwhm --mask /tmp/sk/FSFAST/abe_090116/bold/VisualActivations/mask.nii --i /tmp/sk/FSFAST/abe_090116/bold/VisualActivations/res/all.nii --sum /tmp/sk/FSFAST/abe_090116/bold/VisualActivatio

[Freesurfer] "preproc-sess" failing at 3dvolreg

Hi, I am trying to analyze my fMRI data ( collected at MGH) using FSFAST and I was following the tutrial (http://surfer.nmr.mgh.harvard.edu/fswiki/FsFastWorkFlows). I was able to unpack the data. But when I run "preproc-sess -s -fwhm 2", it fails at 3dvolreg. Here is the log file fmc.nii.mcl