[Freesurfer] question about h_NNN.dat volumes

2006-07-11 Thread Sebastian Moeller
Hi Doug, hi List, I got a question regarding the h volumes inside the analysis sub directories. The content of those file are the regression coefficients for each voxel (XY planes) for each condition (Z stack). Supposedly those estimates are corrected for the noise and would make really nice

[Freesurfer] Re: question about h_NNN.dat volumes

2006-07-11 Thread Sebastian Moeller
Hi Doug, a related question, why do the h volumes show differing values for voxels at the odd time points, supposedly the residual variance per condition, while fast_ldsxabfile only returns one value per voxel for the residual error variance? My expectation is to just have a single eresvar

[Freesurfer] Re: question about h_NNN.dat volumes

2006-07-11 Thread Doug Greve
Hi Sebastian, those are scaled to a global mean of 1000 (so you can think of them as tenths of percents) -- but it's global, not local. Yes, you can divide the h volume by the h-offset to give you local percent signal change. This makes me a little uncomfortable because you can get some

[Freesurfer] Re: question about h_NNN.dat volumes

2006-07-11 Thread Doug Greve
The h volume is a little nasty (blame Anders:). If you want the stddev of the residual error, there should be a rstd.mgh file there. If you want to know about the h volume, read on. doug selxavg-sess creates a directory called bold/analysis in which several volumes will be stored. One of

[Freesurfer] mri_label2label validation failed

2006-07-11 Thread Darren Weber
-BEGIN PGP SIGNED MESSAGE- Hash: SHA1 Dear Doug et al., I'm trying to test mri_label2label because we've observed some strange results in the download for: freesurfer-Linux-rh9-stable-pub-v3.0.2 To test the program, I thought it would be sensible to map a label of one subject onto

Re: [Freesurfer] mri_label2label validation failed

2006-07-11 Thread Doug Greve
The label coords as created by tksurfer should be that of the white surface, so you're really just changing the coords from that of white to that of pial. Can you try removing --trgsurf pial from your cmd and see if the labels are the same? doug Darren Weber wrote: -BEGIN PGP

Re: [Freesurfer] mri_label2label validation failed

2006-07-11 Thread Bruce Fischl
It probably won't be the same as a cp in any case, as you will go through some resampling steps. cheers, Bruce On Tue, 11 Jul 2006, Doug Greve wrote: The label coords as created by tksurfer should be that of the white surface, so you're really just changing the coords from that of white to

Re: [Freesurfer] mri_label2label validation failed

2006-07-11 Thread Doug Greve
I think it should be the same. When the source and target subjs are the same, there should not be any resampling. On Tue, 11 Jul 2006, Bruce Fischl wrote: It probably won't be the same as a cp in any case, as you will go through some resampling steps. cheers, Bruce On Tue, 11 Jul 2006,