Re: [Freesurfer] mri_convert: Dicom to 4D Niftii

you should just be able to run mri_convert dicom nifti4d.nii does that not work? Gallo, Antonio (NIH/NINDS) [F] wrote: Hello all Is there an option in mri_convert to create 4D niftii from Dicom diffusion files? Thanks Antonio Antonio Gallo, MD NIB-NINDS-NIH 10 Center Dr

[Freesurfer] mri_convert: Dicom to 4D Niftii

Hello all Is there an option in mri_convert to create 4D niftii from Dicom diffusion files? Thanks Antonio Antonio Gallo, MD NIB-NINDS-NIH 10 Center Drive Building 10, Room 5B16 Bethesda, MD, 20892 - USA ph #: 001-301-402.6391 fax #: 001-301-402.0373 ***

Re: [Freesurfer] missing transforms/talairach.xfm

Hi Rich, recon-all -talairach -s should work just fine! Jenni On Fri, 6 Jul 2007, Richard Frye wrote: For some reason my mris do not have a transforms/talairach.xfm file (created in old version of freesurfer) Is there any way of creating this file without going through the entire freesurfer

[Freesurfer] missing transforms/talairach.xfm

For some reason my mris do not have a transforms/talairach.xfm file (created in old version of freesurfer) Is there any way of creating this file without going through the entire freesurfer workflow? Thanks Rich -- Best Wishes, Richard E. Frye, M.D., Ph.D., F.A.A.P. Assistant Professor of Pedi

Re: [Freesurfer] glm_fit segmentation fault

eems correct, but I don't know for sure. I've included the evironment/command/output info below and below that the contents of my fsgd file. Thanks, Rob [EMAIL PROTECTED] ~]$ cd $SUBJECTS_DIR/ [EMAIL PROTECTED] SUBJECTS_DIR]$ use_dev freesurfer-Linux-centos4_x86_64-dev-20070

Re: [Freesurfer] glm_fit segmentation fault

le. Thanks, Rob [EMAIL PROTECTED] ~]$ cd $SUBJECTS_DIR/ [EMAIL PROTECTED] SUBJECTS_DIR]$ use_dev freesurfer-Linux-centos4_x86_64-dev-20070706 Setting up environment for FreeSurfer/FS-FAST (and FSL) FREESURFER_HOME /usr/local/freesurfer/dev FSFAST_HOME /usr/local/freesurf

Re: [Freesurfer] glm_fit segmentation fault

o this. This seems correct, but I don't know for sure. I've included the evironment/command/output info below and below that the contents of my fsgd file. Thanks, Rob [EMAIL PROTECTED] ~]$ cd $SUBJECTS_DIR/ [EMAIL PROTECTED] SUBJECTS_DIR]$ use_dev freesurfer-Lin

[Freesurfer] glm_fit segmentation fault

cluded the evironment/command/output info below and below that the contents of my fsgd file. Thanks, Rob [EMAIL PROTECTED] ~]$ cd $SUBJECTS_DIR/ [EMAIL PROTECTED] SUBJECTS_DIR]$ use_dev freesurfer-Linux-centos4_x86_64-dev-20070706 Setting up environment for FreeSurfer/FS-FAST (a

Re: [Freesurfer] About QDEC

Hi Motafa, we're not quite ready to release qdec yet. Hopefully later this summer. cheers, Bruce On Fri, 6 Jul 2007, Mostaf Ghannad wrote: Hi Doug, I was in Multi Modal course and back home I am asked for qdec demonstration. I have a package without qdec. Do I have to download all 1G pack

Re: [Freesurfer] Animal Model

Hi Mostafa, it has been used extensively for monkeys, not sure about rats or mice, but you might check with Anders Dale. I think he's done some rat stuff. Bruce On Fri, 6 Jul 2007, Mostaf Ghannad wrote: Hi, anyone using freesurfer for animal models? i am interested in rats and mice temp

[Freesurfer] Animal Model

Hi, anyone using freesurfer for animal models? i am interested in rats and mice templates cheers Mostafa - Need a vacation? Get great deals to amazing places on Yahoo! Travel. ___ Freesurfer mailin

[Freesurfer] About QDEC

Hi Doug, I was in Multi Modal course and back home I am asked for qdec demonstration. I have a package without qdec. Do I have to download all 1G package again for it? I know I was not released before the course, what about now? Cheers Mostafa

Re: [Freesurfer] Reprocessing data, COR-files

Hi Inge, if you just rerun recon-all with the orig as input it should work. It will skip the motion correction if you give it only a single volume. cheers, Bruce On Fri, 6 Jul 2007, Inge K. Amlien wrote: Thanks, for the first study I converted the COR-files (residing in mri/orig/00*/) to

Re: [Freesurfer] Reprocessing data, COR-files

Thanks, for the first study I converted the COR-files (residing in mri/orig/00*/) to mri/orig/001.mgz and 002.mgz and ran recon-all as normal. For the second study, are the COR-files residing in folder mri/orig/COR-* equal to orig.mgz in 3.05? Is it ok to convert to mgz and run recon-all with -nom