Hi,<br><br>I'm looking for a tool to co-register a stack of microscope histology sections to create a 3D volume. Sections are sliced roughly parallel, taken in pairs with a 10 micron gap, followed by ~70-100 micron gap between each pair, and H&E stained. The raw images are ~28k*28k pixels and ~150mb but I have down-sample to roughly 2500*2500 for the registration step.<br>
<br>I've tried the register_pair/list tool in Farsight Toolkit but it threw some itk memory exceptions, and in any case it seems geared to build adjacency mosaics rather than z-stacks. Also looked at GoFigure2 and V3D but didn't see this functionality in the release builds (apologies if I missed something, please let me know).<br>
<br>I noticed this discussion a while back:<br><a href="http://itk-insight-users.2283740.n2.nabble.com/Constructing-3D-stack-from-2D-image-series-with-registration-td3832165.html">http://itk-insight-users.2283740.n2.nabble.com/Constructing-3D-stack-from-2D-image-series-with-registration-td3832165.html</a><br>
<br>Is this idea implemented anywhere now? I'd appreciate any suggestions, and am happy to build from source...<br><br>Thanks,<br>-Isaiah<br>