I’m a new user of MRtrix (I prefer mentioned it). I’m looking for a small feature that cannot find in mrview.
Here is my issue: I have two sample : imageA.mif (moved) and imageB.mif (ref)
I would like to registered A to B using a linear rigid tranform.
In order to do an initialisation of the tranform to apply, I used the transform tools of mrview to apply rotation and translation on my data and save it as “imageA_moved_manually_by_mrview.mif”.
- How can save the applied transformation, I need it to apply it on other contrasts for instance and to use it in a script.
- As an alternative, I tried to registered my initial image “imageA.mif” to the same image “imageA_moved_manually_by_mrview.mif” in order to get the corresponding transformation. But mrregister failed to registered the same image after applying the rigid motion in mrview. My data is slighlty different from usual input of MRtrix. Here, the hypothesis of intensity conservation is 100% true between the two volumes but the space to explore is large. In theory, it should be possible to get the correct minima. I’m sure I’m not using the optimal parameters, but I tried different options without success.
Thanks in advance for your help. I’m uploading the data and add a link in the forum today.