Thanks a lot a Doug! From: freesurfer-boun...@nmr.mgh.harvard.edu [mailto:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Douglas Greve Sent: Wednesday, August 26, 2015 11:31 AM To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu> Subject: Re: [Freesurfer] Create matrix
So do you need anything else? On 8/26/15 10:51 AM, Alshikho, Mohamad J. wrote: I attached the photo. Actually I didn't realize that this FOV 20 will be consisted of 40 voxels because when I view the output of the previous command line this will look like one big volume! ________________________________________ From: freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu> [freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu>] on behalf of Douglas Greve [gr...@nmr.mgh.harvard.edu<mailto:gr...@nmr.mgh.harvard.edu>] Sent: Wednesday, August 26, 2015 10:37 AM To: freesurfer@nmr.mgh.harvard.edu<mailto:freesurfer@nmr.mgh.harvard.edu> Subject: Re: [Freesurfer] Create matrix No pic attached. That command will create a volume with 40 voxels on a side and FoV of 20mm. What more do you want? On 8/26/15 10:26 AM, Alshikho, Mohamad J. wrote: Hi Doug, I am using the following command line to create single voxel has the same dimensions and position ( from single voxel (svs) MRS data): mri_volsynth --vol BS.nii --pdf const --dim 40 40 40 1 --res 0.5 0.5 0.5 1 --cdircos 0.025458 -0.999671 0.003154 --rdircos -0.670601 -0.014738 0.741673 --sdircos -0.741382 -0.020996 -0.670755 --c_ras -23.993493 -41.351299 22.421719 This will create voxel has specific FOV and position like in svs MRS . Now for MRS (CSI) we have volumetric matrix has number of columns and rows ( like the attached photo - the green matrix). mri_volsynth can help to create big FOV let us say 200 but how can I divide this big volume into smaller voxels ? Thanks! ________________________________________ From: freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu> [freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu>] on behalf of Douglas Greve [gr...@nmr.mgh.harvard.edu<mailto:gr...@nmr.mgh.harvard.edu>] Sent: Wednesday, August 26, 2015 10:08 AM To: freesurfer@nmr.mgh.harvard.edu<mailto:freesurfer@nmr.mgh.harvard.edu> Subject: Re: [Freesurfer] Create matrix does mri_volsynth not work for this? On 8/26/15 9:25 AM, Alshikho, Mohamad J. wrote: Hi Doug, I am using the command "mri_volsynth" to create voxel has specific dimensions and position in the brain. Kindly, I would like to inquire if there is any tool in Freesurfer that can help to create volumetric matrix has a number of columns and rows ( and as a results number of voxels) like the matrix that we make in MRS data ( CSI). Thanks for any suggestion Mohamad _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu<mailto:Freesurfer@nmr.mgh.harvard.edu><mailto:Freesurfer@nmr.mgh.harvard.edu><mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu<mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu<mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu<mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
_______________________________________________ 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.
