Re: [Freesurfer] averaged subject

1) I would probably use all of them. 2) See my earlier email doug Jose Luis Cantero Lorente wrote: Dear Freesurfers, I have a couple of question regarding the averaged map and resultant statistics. Starting from a population composed by three groups (controls, patients1, and patients2), and

Re: [Freesurfer] optseq2 and post hoc sorting

Aaron Trachtenberg wrote: Hi, I am trying to design an event-related memory encoding task. Simply put, the subject either sees familiar or novel pictures (the familiar ones having been shown outside of the scanner before hand). After scanning, recognition for the pictures is tested. I am inter

Re: [Freesurfer] Average subject

There are two places where it might influence it: 1. Computation of the FWHM used for corrections for multiple comparisons depends on the average total surface area of the group. These are probably pretty similar across groups. 2. The size of a cluster is computed (roughly) based on the average

[Freesurfer] Faculty and Research Assistant Positions Available in Boston

PLEASE POST FOR ALL INTERESTED PARTIES NEUROIMAGING RESEARCH POSITION AT THE VA BOSTON HEALTH CARE SYSTEM IN BOSTON MASSACHUSETTS A research position is available in advanced neuroimaging at the VA Boston Health Care System (VABHCS) in the Jamaica Plain area of Boston. This position is in t

Re: [Freesurfer] more info about bbregister

Sorry, I have not documented it very well yet. I just added docs to our local version, so I've copied the info below: USAGE: bbregister Required Arguments: --s subject : FreeSurfer subject name --mov volid : input/movable volume --reg register.dat : output registration file Initializat

Re: [Freesurfer] mri_convert 001.mgz looks bad

Oh, so it is just a visualization problem and not carried through into the data file. Viewing as you suggested, got rid of the problem. Thanks so much for the help! Angela On 2/4/09 10:12 AM, "Bruce Fischl" wrote: > Hi Angela, > > this may just be a visualization artifact of the resampling t

Re: [Freesurfer] mri_convert 001.mgz looks bad

Hi Angela, this may just be a visualization artifact of the resampling to RAS coords. You can try: view->anatomical sampling->main volume->slice which will show the raw (unoriented) data, or view->anatomical resampling->main volume->trilinear which will use trilinear interpolation instead o

[Freesurfer] mri_convert 001.mgz looks bad

I am using mri_convert to convert some MR images in dicom format to 001.mgz. When I view 001.mgz, using tkmedit, each transaxial slice looks like it is pieced together from the wrong slice of the original transaxials. As I progress from one slice to the next, this band moves across the image. It s

[Freesurfer] averaged subject

Dear Freesurfers, I have a couple of question regarding the averaged map and resultant statistics. Starting from a population composed by three groups (controls, patients1, and patients2), and considering that my statistical comparisons will be: Controls-patients1 Controls-patients2 Patients1-

[Freesurfer] optseq2 and post hoc sorting

Hi, I am trying to design an event-related memory encoding task. Simply put, the subject either sees familiar or novel pictures (the familiar ones having been shown outside of the scanner before hand). After scanning, recognition for the pictures is tested. I am interested in the novel > f

[Freesurfer] more info about bbregister

Hello, Dr. Greve, I am using bbregister to register the BOLD to T1. The --help does not provide any imformation about how it works. What are the difference from bbregister to flirt (fslregister)? more information about --intvol also needed. For example, the format of intvol.reg (.mat or .bat?)

[Freesurfer] Research Assistant Positions in Structural and Functional Neuroimaging (Boston)

Posted on behalf of Dr. H. Diana Rosas: Research Assistant Positions Available in structural and functional neuroimaging. Massachusetts General Hospital-Athinoula A. Martinos Center for Biomedical Imaging, Charlestown MA PLEASE POST FOR ALL INTERESTED PARTIES. START DATE: Immediately Fu

Re: [Freesurfer] questions

Hi Silvia, you can use the drawing tools in tkmedit, then just save the volume in the file menu. cheers, Bruce On Wed, 4 Feb 2009, Silvia biopanda wrote: 1) I need to do the manual segmentation of the hippocampus with freesurfer. How can I do that? 2) How can I export the segmentated image

[Freesurfer] questions

1) I need to do the manual segmentation of the hippocampus with freesurfer. How can I do that? 2) How can I export the segmentated image to the binary format? Thanks, Silvia ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh

[Freesurfer] Average subject

Hello,   I need to know if the average subject can influenciate the final statistics.  Can I have an average subject from two groups an use it to comparate another diferent group? Thanks, Kelly Veja quais são os assuntos do momento no Yahoo! +B

Re: [Freesurfer] error in map label to subject

Thanks for your help. I've realized that, when I save the project, and open them again, the SUBJECTS_DIR changes, but only for Qdec. But now it's running ok. Thank you. > > You can try > > unsetenv SUBJECTS_DIR /tmp/qdec_project_archive > > and set the SUBJECTS_DIR to the right directory again. >