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

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)) )

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.

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.

This Matlab code is the 3D extension of the Generalized Riesz-Wavelet Toolbox for Matlab.

The 3D Rotation plug-in allows you to record a 360 degree rotation of the current focused 3D VTK viewer about the vertical screen axis.

The 'angle step' parameter indicates the deviation in degrees between two consecutive snapshots. Increasing the angle will increase rotation speed (up to a point where it might look like jumping more than rotating) and reduce the final movie length.

ICY Plugin, creates a colocalization scatter plot based on 2 channels. This plugin can take 1 ROI as input, and provides the data to build the bubble excel graph.

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.

Icy Morphomath operators: erosion, dilation, opening, closing, top-hat, gradient, distance map, skeleton and watershed.

The EzPlug library is meant to help developers write plug-ins fast and efficiently. This tutorial shows EzPlug's features.

This version replaces the old Arrow_.class tool that was present in Fiji before. The main changes are the ability to draw the arrow as a floating selection, and to tune its shape.

Warning: Since ImageJ version 1.43n, a similar tool, made by Wayne Rasband, does a similar thing from the ImageJ core, see here.

A MATLAB package is made available for computing the fractional smoothing spline estimator of a 1D signal, and for generating fBms (fractional Brownian motion).

The fractional splines are an extension of the polynomial splines for all fractional degrees α > -1. Their basic constituents are piecewise power functions of degree α. One constructs the corresponding B-splines through a localization process similar to the classical one, replacing finite differences by fractional differences. The fractional B-splines share virtually all the properties of the classical B-splines, including the two-scale relation, and can therefore be used to define new wavelet bases with a continuously-varying order parameter