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It does this by using an image stack of RGB-NIR, Normalised Difference Vegetation Index (NDVI) and textural bands in a two-phase object-based classification.
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These source images are then stitched together using an image-stacking program which aligns each exposure pixel by pixel.
The video files were converted into an image stack using Virtual Dub (Version 1.6.19, http://www.virtualdub.org) and subsequently digitised using Didge (Version 2.30b1, http://biology.creighton.edu/faculty/cullum/Didge).edu/faculty/cullum/Didge
Crop each channel of an image stack using the same x, y and z bounds.
Registered CD34, GLUT-1 and CA IX sections were converted to an image stack using ImageJ.
Use the default parameterization in an image stack set-up as described above.
It is advisable to use the default parameterization in an image stack set-up as described above.
The shadow images were reconstructed using Skyscan Recon software to generate an image stack comprising sections through the teeth.
Using the image stack recorded before FISH as reference, the calculated registration transformation, consisting of 3D translation and rotation, was applied to the multi-channel image stack obtained after FISH.
Dendritic segments and spines were analyzed quantitatively by using 3D image stacks using ImageJ software 1.34S Wayne Rasbandd, National Institute of Health, Bethesda, MD, USA, public domain).
We used a 3D confocal image stack of a single fruit fly neuron (size=512 × 512 × 60 voxels) as the input.
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