[Freesurfer] MRI Position at Department of Neurology, New York University School of Medicine

2012-04-29 Thread Thesen, Thomas
We are seeking a full-time postdoctoral research fellow or MRI staff physicist to help organize and support a multi-site, longitudinal MRI study in epilepsy patients and controls. Experience in multi-site MRI studies is highly desirable, and experience with multimodal MRI methods and longitudina

[Freesurfer] V1 prediction

2011-03-15 Thread Thesen, Thomas
Dear Freesurfer List, I ran the script for predicting V1 location on the surface: http://surfer.nmr.mgh.harvard.edu/fswiki/V1 According to the paper, the output should be a probability map, but the script only seems to produce a label file: $SUBJECT_DIR/label/?h.v1.prob.label . When I load this

[Freesurfer] intracranial EEG position at NYU

2011-03-09 Thread Thesen, Thomas
Research Assistant Position in Cognitive Neuroscience Department of Neurology, School of Medicine, New York University We are seeking a full-time Research Assistant to assist with cognitive neuroscience experiments involving human intracranial EEG. Main topics of investigation are language, mem

[Freesurfer] vertex-wise nuisances

2011-02-06 Thread Thesen, Thomas
Dear Freesurfer experts, Is there a way using the existing statistical tools in Freesurfer to control for a variable that changes across vertices? For example, looking at the correlation of performance measure X with thickness at each vertex, while correcting for curvature at that specific vert

[Freesurfer] variance or stdev from average

2011-01-06 Thread Thesen, Thomas
Hi, I am using mris_average_curvature to create an average thickness map across subjects (registered to fsaverage). The command line I am running is: mris_average_curvature lh.thickness lh sphere.reg subj01 subj02 subj20 outputfile This produces the average, but my question is if there

[Freesurfer] brain stem volume

2010-10-20 Thread Thesen, Thomas
Dear Freesurfers, I am curious as to how accurate the brain stem and ventral DC volumes are? In particular, how does FS decide where to stop in the inferior direction, i.e. where does it draw the junction between brain stem and spinal cord? Are there FS options to segment the brain stem any fur