Thanks, Doug and Kara, mri_concat is very handy. Xu
On Fri, Oct 24, 2008 at 11:40 AM, Doug Greve <[EMAIL PROTECTED]>wrote: > one way to do it is with mri_concat, something like > > mri_concat f???.img --o f.nii.gz > > if your individual volumes are f000.img f001.img etc > > > Kara Dyckman wrote: > > I'm not sure. When I just tried it, it converted to .nii.gz. Maybe it >> has to do with the version of fsl being used? I'm posting this to the >> freesurfer listserv to see if anyone else has ideas. >> >> >> Xu Cui wrote: >> >> Thanks Kara. I tried fslmerge on my images and the result is a single >>> .img / .hdr pair, not a nii or nii.gz file. Do you have any clue? The >>> reason to convert to nii is that fsfast seems to require nii file. >>> >>> Thanks, >>> Xu >>> >>> On Thu, Oct 23, 2008 at 2:20 PM, Kara Dyckman <[EMAIL PROTECTED]<mailto: >>> [EMAIL PROTECTED]>> wrote: >>> >>> If I remember correctly, you can use the fslmerge command to merge >>> all the .hdr files into one nifti file. >>> >>> Try this in the directory where your analyze files are: >>> fslmerge -t outputname *.hdr >>> >>> outputname is whatever you want to call your new nifti file >>> >>> The result will be outputname.nii.gz >>> >>> Hope that helps! >>> Kara >>> >>> >>> Xu Cui wrote: >>> >>> Does anybody know how to convert a series of Analyze files >>> into a single nii file? Each analyze file is a single 3D >>> volume at a time point; the nii file would be 4d. >>> >>> Thanks, >>> Xu >>> >>> -- >>> ---------------------------------------------------------------- >>> Xu Cui >>> Department of Psychiatry and Behavioral Sciences >>> Stanford University >>> ---------------------------------------------------------------- >>> >>> ------------------------------------------------------------------------ >>> >>> _______________________________________________ >>> Freesurfer mailing list >>> Freesurfer@nmr.mgh.harvard.edu >>> <mailto:Freesurfer@nmr.mgh.harvard.edu> >>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >>> >>> >>> >>> -- Kara A. Dyckman, Ph.D. >>> Postdoctoral Fellow, Manoach Lab >>> Psychiatric Neuroimaging >>> Massachusetts General Hospital >>> Charlestown Navy Yard >>> 149 13th St. >>> Charlestown, MA 02129 >>> email: [EMAIL PROTECTED] <mailto:[EMAIL PROTECTED]> >>> phone: 617-724-4604 >>> fax: 617-726-4078 >>> >>> http://nmr.mgh.harvard.edu/manoachlab >>> >>> >>> >>> >>> -- >>> ---------------------------------------------------------------- >>> Xu Cui >>> Department of Psychiatry and Behavioral Sciences >>> Stanford University >>> ---------------------------------------------------------------- >>> >> >> >> >> > -- > Douglas N. Greve, Ph.D. > MGH-NMR Center > [EMAIL PROTECTED] > Phone Number: 617-724-2358 Fax: 617-726-7422 > > In order to help us help you, please follow the steps in: > surfer.nmr.mgh.harvard.edu/fswiki/BugReporting > > > -- ---------------------------------------------------------------- Xu Cui Department of Psychiatry and Behavioral Sciences Stanford University ----------------------------------------------------------------
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