We are trying to rotate images in Analyze to align the midline. We have
to do this by getting series from a PAX system to a PC with Analyze,
rotating the images, sending back to PAX, and then transfering to a linux box
with FreeSurfer. For some reason, FreeSurfer loads only a thin slice from
the se
Happy soon-to-be Independence Day FreeSurfers,
I am in the process of trying to fix the segmentation of my surface and I had a few general questions:
Is editing the voxels the only way one can change what is counted as white vs. grey matter? Is there any way to indicate with control points what
Hi Sarah,
rgb is an image format, and COR is a volume format. There are freesurfer
matlab scripts that can write a volume out in cor (or mgh) format. I've
attached them.
cheers,
Bruce
On Fri, 1 Jul 2005,
Sarah Rugheimer wrote:
Hello,
I manipulated some of the slices in matlab and would
Hello,
I manipulated some of the slices in matlab and would like to convert
them back into COR format so I can bring them back into Freesurfer to
complete the reconstruction. I can save these images into any matlab
supported format or RGB. Since freesurfer can convert COR to RGB I
thought the
Hi Renat,
yes, you can generate those images from FreeSurfer. Hopefully we'll have
a step-by-step tutorial with some example (aging) data showing how it's
done sometime in the next month. Stay tuned.
cheers,
Bruce
On Thu, 30 Jun 2005, Renat
Yakupov wrote:
Hello, everybody.
In 2004 Free
Sorry, I gave you a slightly wrong tkmedit command-line, it should have
been -overlay-reg ...
As for tkmedit, the mask is probably too dark. Click in the window and
hit 'i'. This will turn on intensity normalization, which will probably
fix the problem. You may want to load in the volume that
