plugin

The smoothing is applied by the way of a bi-exponential filter, itself realized by a pair of one-tap recursions. It is therefore very fast; moreover, its computational cost is truly independent of the amount of smoothing. Meanwhile, the preservation of edges is obtained by a range filter akin to the range filter found in a bilateral filter. More technical details are available here.

The plugin allows one to control the amount of smoothing, the type of range filter, its broadness, and to iterate the filter several times if desired. We illustrate in Figure 2 a possible outcome of this filter. Here, we iterated the BEEPS 10 times with a Gaussian range filter, σ = 10, and the spatial decay λ = 0.1.

JRuby script that will take an image stack and generate from it an image that should appear in 3D when viewed through red and cyan glasses. All that this does is to do two maximum intensity projections from two slightly different angles and merges them together.

The purpose of this plugin is to create a text file with a list of files from Gatan’s 3View montage image stacks. This text file can then be used to automatically import all the images into TrakEM2, as they are, stored in the original directories.

This plugin perform various 3D filters on 8-bits or 16-bits gray-levels stacks :

• 3D median

• 3D mean

• 3D minimum

• 3D maximum

• 3D maximum local

• 3D tophat (detect bright spots, TH=I-max(min(I)) )

3D viewer provides hardware-accelerated 3D visualization of image stacks as volumes, surfaces and orthoslices.

This plugin registers (= aligns, matches) a stack of image slices.