That was helpful. Thanks Michael. On Fri, Feb 5, 2016 at 5:19 PM, Harms, Michael <mha...@wustl.edu> wrote:
> > As an add-on to this, note that using a single table for all subjects is > probably only appropriate if the DWI was acquired with a fixed orientation > relative to the scanner gradient axes (e.g., strictly axial) for all > subjects. If the orientation was customized individually for each subject > (e.g., to align the imaging plane with the AC/PC), then it is unlikely that > using a single table for all subjects is appropriate. > > cheers, > -MH > > -- > Michael Harms, Ph.D. > ----------------------------------------------------------- > Conte Center for the Neuroscience of Mental Disorders > Washington University School of Medicine > Department of Psychiatry, Box 8134 > 660 South Euclid Ave. Tel: 314-747-6173 > St. Louis, MO 63110 Email: mha...@wustl.edu > > From: <freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of Alan Francis < > alandarkene...@gmail.com> > Reply-To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu> > Date: Friday, February 5, 2016 at 3:57 PM > To: Anastasia Yendiki <ayend...@nmr.mgh.harvard.edu> > Cc: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu> > Subject: Re: [Freesurfer] DTI - Tracula question > > Hi Anastasia: > > Thank you so much. Yes that is very helpful. > > best, > > Alan > > On Fri, Feb 5, 2016 at 3:03 PM, Anastasia Yendiki < > ayend...@nmr.mgh.harvard.edu> wrote: > >> >> Hi Alan - Yes, you can give a single file for all data sets if they're >> all acquired with the same gradient table and slice prescription. As a >> test, you can extract the gradient tables from a couple of your data set's >> dicom headers and see how different they are. If there are only very small >> differences, using a single table for all will not make a difference. >> >> Hope this helps, >> >> a.y >> >> >> On Fri, 5 Feb 2016, Alan Francis wrote: >> >> Thanks Anastasia - that was very helpful. I have another question : I am >>> working on a DTI dataset of around 70 subjects. This >>> dataset has ostensibly only 1 set of BVECS/BVALS. Can this set be >>> 'generically' used for all the images, given that they have been >>> acquired on the same scanner? >>> >>> >>> >>> thanks, >>> >>> >>> >>> Alan >>> >>> >>> On Wed, Feb 3, 2016 at 4:17 PM, Anastasia Yendiki < >>> ayend...@nmr.mgh.harvard.edu> wrote: >>> >>> Hi Alan - A nifti file with the gradient tables and b-values >>> embedded? All freesurfer programs can handle nifti >>> volumes, compressed (.nii.gz) or not (.nii). You can pass those >>> volumes to TRACULA, and pass the gradient table and >>> b-value table as separate files. >>> >>> Run "mri_convert --help" to see all image file formats that we can >>> handle. >>> >>> Hope this helps, >>> a.y >>> >>> On Wed, 3 Feb 2016, Alan Francis wrote: >>> >>> Hi Anastasia: >>> >>> I am working on a set of DTI data that were obtained at the >>> Martinos center. The data is in a single >>> nii.gz file. The BVECS and >>> BVALS files are also embedded in this. Could you please >>> advice me how do I code this in the DMRIRC file? >>> >>> Should I convert the nii.gz file into Analyze to get at the >>> BVECS/ BVALS? >>> >>> thank you so much, >>> >>> best regards, >>> >>> Alan >>> >> > > ------------------------------ > > The materials in this message are private and may contain Protected > Healthcare Information or other information of a sensitive nature. If you > are not the intended recipient, be advised that any unauthorized use, > disclosure, copying or the taking of any action in reliance on the contents > of this information is strictly prohibited. If you have received this email > in error, please immediately notify the sender via telephone or return mail. > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > The information in this e-mail is intended only for the person to whom it > is > addressed. If you believe this e-mail was sent to you in error and the > e-mail > contains patient information, please contact the Partners Compliance > HelpLine at > http://www.partners.org/complianceline . If the e-mail was sent to you in > error > but does not contain patient information, please contact the sender and > properly > dispose of the e-mail. > > -
_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
