Hi all,
Technical issue.
I have 2 microCT data sets (medial and lateral parts from the same distal femur) with an overlapping area.
Both scans do not have the exact same orientation.
I am trying to merge them to reconstruct a unique data set containing the full bone.
does anyone know how to do it with Avizo or another software?
Thanks in advance for your advice,
Antony
Hello Antony, I did this a while ago using the software Avizo. I am happy to share my notes if you send me your e-mail address. Karen
Hello Antony,
I did it once but it was months ago so I am not sure this was how I did it but maybe you could try the "Align Slices" tool on Avizo (Geometry transforms => Align Slices)
Best,
Narimane
Hi Antony,
in Avizo, you will need the modules "Register Images" for aligning the data-sets onto each other, and "Merge" to create a new merged data-set out of the aligned ones.
For a short description on how to do this, please have a look at this video:
https://xtras.amira-avizo.com/xtras/how-to-register-and-merge-images
To be able to use "Register Images", the two data-sets have to be pre-aligned to a certain extent. This pre-alignment you can e.g. achieve using the "Transform Editor", like it is shown in this video:
https://xtras.amira-avizo.com/xtras/how-to-use-the-transform-editor
Kind regards,
Andreas
Hello Antony,
You can find a "registration" module in Skyscan Nrecon and Dataviewer® softwares
Maybe one of these publications is helpful:
Handschuh et al., 2013, "A correlative approach for combining microCT, light and transmission electron microscopy in a single 3D scenario"
Cardona et al., 2012, "TrakEM2 Software for Neural Circuit Reconstruction"
Saalfeld et al., 2010, "As-rigid-as-possible mosaicking and serial section registration of large ssTEM datasets"
I only have german notes on co-registration of CT-data to offer. Contact me if you need them.
Hi Antony,
You can use Blender Software, It is a free option. This is a tutorial https://www.youtube.com/watch?v=ck6FIV7uVSE&t=4s.
Cristian
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