These commands take a known transformation, usually determined by jip-align, and register data to the new space.
register <stack list>
Performs registration from one space to another. Typically, one would first read the output of jip-align to define registration variables:
However, it’s also possible to simply enter registration variables directly into jip. To simply change the image resolution:
set registration-matrix 80 80 60
All registration uses either a Lanczos or a Gaussian kernel, controlled by the variable “interpolation-kernel”.
inverse-register <stack list>
Perform the inverse operation relative to the example above (registered space -> original space) using the same align.com file as the forward path.
register-histology <stack list>
This command is analogous to the registration above but uses different input files (not distributed).
down-sample <volume list>
This uses the variable “target-matrix” to define the desired resolution. Data are resampled using a Gaussian convolution kernel.