Re: [Freesurfer] TRACULA: how to implement DTI repeat sequence?

2011-10-28 Thread Ansgar Furst
Dear Anastasia, Re-running bedpostX just did it and I didn't encounter the problem on any subjects after that. Everything is running great now. I just had 2 more follow-up questions: what's the best way to concatenate the 2 repeat DICOM DWI series into 1 NIFTI file (you mentioned that below)? How d

Re: [Freesurfer] TRACULA: how to implement DTI repeat sequence?

2011-10-28 Thread Anastasia Yendiki
Hi Ansgar - If the 2 series are in register with each other, you can just concatenate them with mri_concat. You'd also have to concatenate the respective bvals and bvecs in the same order. For average FA, look in the pathstats.overall.txt file of each reconstructed pathway. For more on this

[Freesurfer] Sag3D_T1 or Axial_T1

2011-10-28 Thread Antonella Kis
Dear Freesurfers, I have a set of MRI data collected in an Axial_T1 and some in Sag3D_T1. I wonder if after dcm to nii conversion when I get a 3D or 4D volume (if further use for FSL) it really matter how my data was acquired (Axial or Sag) since the NIFTI file is in fact a volume. Should I do

[Freesurfer] Bad vertex in mris_flatten

2011-10-28 Thread Oya, Hiroyuki (UI Health Care)
Dear sir, Mris_flatten could not be completed due to the fact that only one bad vertex was found in the patch. Is there any quick way to correct the vertex? Thank you. Hiroyuki Notice: This UI Health Care e-mail (including attachments) is covered by the Elec

[Freesurfer] Any Pre-exisiting Public Amazon EC2 AMI with Freesurfer out there?

2011-10-28 Thread Joshua Lee
Are there any existing Amazon EC2 AMI registered publicly that can be used? I want to analyze a lot of data fast. Thanks, - Joshua Lee ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

Re: [Freesurfer] Any Pre-exisiting Public Amazon EC2 AMI with Freesurfer out there?

2011-10-28 Thread Pedro Paulo de Magalhães Oliveira Junior
I have one. I'll give you the link -- iOS 5.0 Em 28/10/2011, às 20:52, Joshua Lee escreveu: Are there any existing Amazon EC2 AMI registered publicly that can be used? I want to analyze a lot of data fast. Thanks, - Joshua Lee ___ Freesurfer mailing

Re: [Freesurfer] Bad vertex in mris_flatten

2011-10-28 Thread Bruce Fischl
Hi Hiroyuki What does that mean? How did it fail? Bruce On Oct 28, 2011, at 5:03 PM, "Oya, Hiroyuki (UI Health Care)" wrote: > Hiroyuki ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/fr