just give recon-all a single slice from the series with -i <slice file name>. It will figure out
the rest of them
On Tue, 28 Jun 2016, Dorsa Haji Ghaffari wrote:
Hi, I am a little confused about how should I save my files to execute recon-all on them. I have 240 slices of dicom format and I put them in a folder in my subjects_dir. but I get errors when using recon-all on the folder containing the MRIs. Can you help me with that? I really appreciate your help
Thank you
Dorsa
On Mon, Jun 27, 2016 at 3:13 PM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote: Hi Dorsa
what specific models do you need? The 10-20 hours is to process the data from a single subject at a single timepoint. If you check out our wiki (http://surfer.nmr.mgh.harvard.edu/fswiki) there are lots of tutorials and sample datasets and such cheers Bruce On Mon, 27 Jun 2016, Dorsa Haji Ghaffari wrote: > Hi, > I am graduate student at the University of Michigan and I am performing > research on deep brain stimulation. I want to warp an anatomical brain atlas > to individual patient MRIs to get the patient specific brain models out of > it. I chose FreeSurfer to do this and I have installed it on my computer. I > realized that it takes 10-20 hrs to reconstruct the image. I wanted to ask > if that is the time for one image? or the whole series of images? > I also wanted to ask if there is a step by step tutorial on how to do this. > > Thank you > > Dorsa Ghaffari > > > >
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