Hi,
I'm also using R to look at some FreeSurfer data, mostly to play with
significance values. To do this, I convert them to ascii (mris_convert)
and load them into R with the read.table function. When I am done, I
write a new ascii file, mris_convert it back to a *.w or *.sig, and load
it in
Kevin has just made a change to the default way that the DEV version of
tksurfer displays colors in overlays. The change has to do with the way
the color is displayed near the threshold (fthresh). Previously, as a
superthreshold value approached the threshold, its color and opacity
would chan
Hi all,
I have a question on matching slice location between dicoms and the
freesurfer output. I have a set of 120 dicom files and I ran it through
the autorecon process in freesurfer. From the viewer with tkmedit, there
are 180 files (slice 218 to 39 in trans view) that corresponded to
scann
Hi Trina,
each volume should have a vox2ras (and ras2vox) matrix that you can
extract with mri_info. The combination of ras2vox_vol1 * vox2ras_vol2 will
take you from vol2 voxel coords to vol 1 voxel coords.
cheers,
Bruce
On
Wed, 4 Apr 2007, Trina Kok wrote:
Hi all,
I have a question on
Hi all,
I am trying to run an analysis in /space/stego/2/ (on machine
'whatever') and I can run mkanalysis, but when I try to run selxavg, I
get the following error, in both std and dev environments:
whatever:subj27/mystudy% selxavg-sess -sf sessid -df sesspar -analysis
m4_fmc -noomnibus
Hi Katie,
It's actually writing to /tmp, on 'whatever', which appears to be full. You
should clear out some space on that so that selxavg can write it's little
temporary files and then everything should be fine!
whatever:jpacheco[/homes/3/jpacheco] cd /tmp/
whatever [tmp] df -h .
Filesystem
Thank you, Jenni! It's working now.
K
Jenni Pacheco wrote:
Hi Katie,
It's actually writing to /tmp, on 'whatever', which appears to be full. You
should clear out some space on that so that selxavg can write it's little
temporary files and then everything should be fine!
whatever:jpacheco[/h
Glad to hear it!
-Original Message-
From: Kathryn Devaney [mailto:[EMAIL PROTECTED]
Sent: Wednesday, April 04, 2007 11:11 PM
To: Jenni Pacheco
Cc: freesurfer@nmr.mgh.harvard.edu; 'help'
Subject: Re: [Freesurfer] erroneous 'no space left on device' error
Thank you, Jenni! It's working no
I ended up trying a bit of a hack, and it seems to have worked, but I
don't know if I can trust it. I used the AnalyzeFMRI package in R to
output my data in an Analyze file. I had to change the voxel size and
origin in the header manually. And then I copied a .mat file from
another 3D Analyze f
