Posted by
nellypledge on
Jun 30, 2016; 6:11pm
URL: http://imagej.273.s1.nabble.com/Multiview-Reconstruction-Plugin-Help-tp5016784.html
Hi guys, I hope the data treats you well.
I've been playing around with some SPIM data and the multiview reconstruction plugin. I've been having trouble registering some data sets from some cleared tissue data sets that fill the field of view, and hence I have no registration beads to work with.
I've been trying to use the redundant geometric local descriptor matching option for the type of registration in the basic registration options, which I assume is the correct option (I recall hearing Stephan mention it in his tutorial presentation). On the ImageJ.net help page I see that it requires the info on the rotations. It knows the angles, and so I'm not sure if it already applies the rotations for me...? On using the apply transformations tool to rotation each data set the required amount around the x-axis I see in the BigDataViewer that it rotates on the corner of the volume. Does the translation-invariance mean that the volumes can be translated but not rotated? I also tried around the y-axis in case I had them mixed up but I saw something equally 'star shaped' in the BigDataViewer. Any tips on the manual transformation controls would be very helpful.
In the following windows there are many options which I am equally unsure about. Any info on the nitty gritty of all the options and parameters would be much appreciated (Fix Tiles, Map back, Transform model, Regularization model and settings, and then the regularization settings too). Alternatively, if it's an option, if anybody has any documents and/or presentations on the related topics to help bring me up to speed that would be great. I've started to read some
Thanks in advance for your time.
Neil
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