[Freesurfer] colormap

2008-11-24 Thread Siddharth Srivastava
-with relevant subject-- sorry for multiple sends. On Mon, Nov 24, 2008 at 8:43 PM, Siddharth Srivastava <[EMAIL PROTECTED]>wrote: > Hi everyone, >Any recommendations on how to set up a proper colorscale > for > visualization? My data do not have negative values (lgi, but a la

Re: [Freesurfer] Focusing on Relevant Areas

2008-11-24 Thread Siddharth Srivastava
Hi everyone, Any recommendations on how to set up a proper colorscale for visualization? My data do not have negative values (lgi, but a large range, 1 - 15, and i would like to use the entire range of blue-green etc. maps. I have been playing around with the color-scale window i

[Freesurfer] fs-fast smoothing

2008-11-24 Thread Scott Gorlin
Hi, I'd like some clarification on the recommended procedure for smoothing functional data across the cortical surface in FS-FAST. I've managed to get it working using the following procedure: 1) analyze my data using selxavg3-sess in the native space, without smoothing 2) resample the aver

Re: [Freesurfer] Focusing on Relevant Areas

2008-11-24 Thread Pratap Kunwar
Hi MOe, You can make a label file of the region of interest from aseg file. One easy way to do using matlab, m = MRIread('aseg.mgz'); m.vol = (m.vol == ## | m.vol == ##); MRIwrite(m,'roi.mgz'); ## get from FreeSurferColorLUT.txt in freesurfer home. pratap > Hello, > > I'm doing a volume analys

[Freesurfer] Focusing on Relevant Areas

2008-11-24 Thread Zeidan, Mohamed A.
Hello, I'm doing a volume analysis and have found activation in my region of interest. I'm looking to present these data, but there are areas not of interest that also display activation, and so I'd like to leave them out of my image if possible as they are distracting. Does anyone have a suggest

Re: [Freesurfer] stats in freesurfer

2008-11-24 Thread LĂșcia Garrido
Dear Doug, Many thanks for your e-mail. I've tried to do what you suggested to correct with FDR just using specific regions, but i couldn't find the buttons you mentioned. I thought it was my qdec version so I downloaded the most recent version of freesurfer and did recon all qcache with everyone