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users > RE: Registration of 32-bit stacks
Aug 1, 2020 05:08 PM | Greg Jefferis
RE: Registration of 32-bit stacks
Can you show your command and all the output? You can include the
-v (verbose) switch
reformatx -v --outputtype "uint" --pv --floating mylabels.nrrd -o template_labels.nrrd template.nrrd registration.list
to produce additional output.
Originally posted by Francesco Vanzi:
No it does not matter.
I mean, is it ok if I have my greyscale stack (16 bit), I register that onto a template (16 bit) and then I reformat my labels (32 bit) with the transformation obtained in the registration of those two?
Yes that is fine.
Yes, your understanding is correct. The template image is needed at this step *only* to specify the dimensions of the new output image, not the transform. It is actually possible to specify these dimensions on the command line, but we recommend doing it this way.
reformatx -v --outputtype "uint" --pv --floating mylabels.nrrd -o template_labels.nrrd template.nrrd registration.list
to produce additional output.
Originally posted by Francesco Vanzi:
Does it matter if the registration was done on
16bit template and sample?
No it does not matter.
I mean, is it ok if I have my greyscale stack (16 bit), I register that onto a template (16 bit) and then I reformat my labels (32 bit) with the transformation obtained in the registration of those two?
Yes that is fine.
Also, another question to try to better
understand the process: my understanding is that the .list folder
contains the matrix/ces necessary to reformat the sample into the
template space, correct? When I apply this matrix to my labels I
should transform them into the template space as well. Why is the
template stack needed in the reformat routine?
Yes, your understanding is correct. The template image is needed at this step *only* to specify the dimensions of the new output image, not the transform. It is actually possible to specify these dimensions on the command line, but we recommend doing it this way.
Threaded View
| Title | Author | Date |
|---|---|---|
| Francesco Vanzi | Jul 31, 2020 | |
| Francesco Vanzi | Aug 1, 2020 | |
| Greg Jefferis | Jul 31, 2020 | |
| Francesco Vanzi | Jul 31, 2020 | |
| Greg Jefferis | Jul 31, 2020 | |
| Francesco Vanzi | Jul 31, 2020 | |
| Greg Jefferis | Jul 31, 2020 | |
| Francesco Vanzi | Jul 31, 2020 | |
| Greg Jefferis | Aug 1, 2020 | |
| Francesco Vanzi | Aug 1, 2020 | |
| Greg Jefferis | Aug 1, 2020 | |
| Greg Jefferis | Aug 1, 2020 | |
| Francesco Vanzi | Aug 1, 2020 | |
| Greg Jefferis | Aug 1, 2020 | |
| Francesco Vanzi | Aug 1, 2020 | |
| Greg Jefferis | Aug 1, 2020 | |
| Francesco Vanzi | Aug 7, 2020 | |