Hi,

I'm having problems applying the transform matrix from dof2mat to traced neurons.
A little background for my problem:  we're trying to trace neurons from many different insect brains in different alignments.  Since brain registration usually involves a decrease in image resolution, we'd like to trace the neurons in the original images, perform the registration to a template brain, and then apply the transformation matrix from said registration to the traced neuron.

The dof2mat seems to be the correct tool, however when I apply the matrix to my swc file (in Matlab), the traced neuron is significantly off from transformed image.  The misalignment is beyond just a simple translation, and appears to consist of both rotation and shear errors.

Are there any known issues that would cause the error with this workflow?  Should I instead be trying to sequentially apply the translation/rotation/scale/shear matrices from the xform file?  If so, what are the units on these sub matrices (radians on the rotation matrix, microns on the translation, etc?)

Thanks!