 |
 |
hi. when i run dtifit, and view the FA image, it look like a non-diffusion weighted image. do these bvecs and bvals look okay? Thank you. David On 5/28/07, David Kideckel <[log in to unmask]> wrote: > > hello. i have tried your previous suggestions, and think that the problem > may be in the bvecs file, but i do not know for sure. how would i check for > this? > thanks again. > David > > On 5/25/07, Tim Behrens <[log in to unmask]> wrote: > > > > Hi - if you run bedpost_datacheck on your directory it might tell you > > what's wrong - for example make sure the number of entriess in bvals and > > bvecs is the same as the number of volumes in your data. > > > > T > > On 24 May 2007, at 00:17, David Kideckel wrote: > > > > hi. thank you for your support. once i run bet from the command line > > (using cygwin), it does not seem to be working properly. but when i use the > > gui, it does... > > anyway, i am trying to rum dtifit from the command line and get the > > following message: > > 0 256 0 256 0 50 > > 0 slices processed > > Aborted <core dumped> > > > > Any idea why this is happening? Did I enter something wrong? > > > > Thanks. > > David > > > > On 5/23/07, Tim Behrens < [log in to unmask]> wrote: > > > > > > If you select dtifit from the drop down menu on the same page, all` > > > the information about file specifications is there. Don't forget to end your > > > bvecs and bvals files with carriage returns. > > > Cheers > > > > > > T > > > On 23 May 2007, at 18:53, David Kideckel wrote: > > > > > > Hi. That was one of the firs things I did do. I will try to be more > > > specific with my question. I want to do TBSS, and no tractography. So, would > > > I do the following in this order: > > > Eddy Correct > > > BET > > > DTI Fit > > > > > > If so, where is it in the manual specified how to create and input the > > > bvecs and bvals files? I follow the link it gives in the FAQ section, but I > > > can't seem to find this info. > > > > > > Thanks again for your help. > > > David > > > > > > On 5/23/07, Tim Behrens < [log in to unmask]> wrote: > > > > > > > > Hi - if you go to http://www.fmrib.ox.ac.uk/fsl/fdt/index.html > > > > > > > > and select "processing pipeline", all should be clear. > > > > > > > > T > > > > > > > > On 23 May 2007, at 17:22, David Kideckel wrote: > > > > > > > > Hi. Thank you for your response. Can you please send me this > > > > information. I can't seem to find it on the FSL website. > > > > Thanks you. > > > > David > > > > > > > > On 5/23/07, Steve Smith < [log in to unmask]> wrote: > > > > > > > > > > Hi, > > > > > > > > > > Indeed - you should run eddy_correct and then bet and then dtifit > > > > > to > > > > > produce the FA image - see the FDT manual pages for more details. > > > > > Sorry the TBSS page isn't clearer about that - we'll fix that > > > > > shortly. > > > > > > > > > > Cheers. > > > > > > > > > > > > > > > > > > > > On 22 May 2007, at 18:51, David Kideckel wrote: > > > > > > > > > > > Dear FSLers, > > > > > > > > > > > > I am new to TBSS and am wondering what the preprocessing steps > > > > > are > > > > > > to do prior to TBSS. This information seems to be different on > > > > > the > > > > > > FAQ section of the FSL website and the technical report on TBSS. > > > > > > > > > > > > > > > > > Is it correct to assume that to compare 2 groups with diffusion > > > > > > data, I would need to run: > > > > > > Eddy correct > > > > > > Registration > > > > > > DTIFit > > > > > > TBSS > > > > > > > > > > > > I am unclear as to whether I need to run BET (brain extraction > > > > > > tool) and/or BEDPOST. > > > > > > > > > > > > Any guidance would be much appreciated. > > > > > > > > > > > > David Kideckel, PhD Candidate > > > > > > > > > > > > > > > > > > > > ------------------------------------------------------------------------ > > > > > --- > > > > > Stephen M. Smith, Professor of Biomedical Engineering > > > > > Associate Director, Oxford University FMRIB Centre > > > > > > > > > > FMRIB, JR Hospital, Headington, Oxford OX3 9DU, UK > > > > > +44 (0) 1865 222726 (fax 222717) > > > > > [log in to unmask] http://www.fmrib.ox.ac.uk/~steve<http://www.fmrib.ox.ac.uk/%7Esteve> > > > > > ------------------------------------------------------------------------ > > > > > > > > > > --- > > > > > > > > > > > > > > > > > > > > > > > > > > > >