All standard tensor analysis use a glm, they just don't often call it
that. The design matrix are columns formed from the cross products of
the gradients (of which there are 6) plus a column of 1s, and the log()
of the input data is taken before the glm. After that, it's just a glm.
Siddharth Srivastava wrote:
Hi Douglas,
Thanks for the reply. can i get a link to a
publication or
report that describes the GLM analysis applied to tensors?
thanks,
sid.
On Mon, Feb 9, 2009 at 10:22 AM, Douglas N Greve
<gr...@nmr.mgh.harvard.edu <mailto:gr...@nmr.mgh.harvard.edu>> wrote:
It will probably be the case that it just gives the entire volume
(the "masking" routine just looks for 0-valued voxels). I don't
think it actually uses the mask for anything, though.
glmfit is run because that's what the tensor analysis is.
Siddharth Srivastava wrote:
Hi everyone,
I have recently started using the dt_recon
processing pipeline
in freesurfer. I just ran a dataset through it, and had a few
questions about
the methodology
1) How does the script calculate the mask from the DW data
set. Is there any way
to influence the mask calculation routine? I am familiar with
bet/bet2 and i have
an set of parameters tuned to my dataset. within dt_recon, i
get the entire volume
as a mask, while fsl generated a nice inclusive mask. Is there
any way i can use
the bet generated mask with dt_recon?
2) why is a glm fit done at the end of the processing stage?
best regards,
sid.
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