Contents

Image segmentation by representative colors selection. Two versions are available :

• thresholding
• positive and negative colors selection and SVM learning

Anisotropic filter implements the classical Coherence Enhancing Diffusion Filter [Weickert]. The plugins works on the first band of a 2D, 3D and 4D sequence. 2D and 3D algorithms are proposed. For the 3D case 2 options are available: CED 1D option is the classical filter that acts mainly on the most homogeneous structure direction; CED 2D option acts on the tangential plane of the structure.

View your multi-channel data as a montage with one image per channel plus a merged, color channel (useful to create figures for communication). 

This viewer plugin will split all N channels of the active sequence into a montage of N+1 images, with one image for each channel, plus an additionnal color (merge) rendering.

This plugin automatically threshold an image using the Mixture Modeling algorithm. It is an histogram-based technique that assumes that the histogram distribution is represented by two Gaussian curves.

Three different methods for correcting fluorescence bleaching. 1. Simple (framewise ratio based) 2. Exponential (curve fitting with exponential decay model) 3. Histogram matching (register histogram shape. with 16 bit, it takes long time... it should be improved).

Retinex filtering is based on Land's theory of image perception, proposed to explain the perceived colour constancy of objects under varying illumination conditions. Several approaches exist to implement the retinex principles, among these the multiscale retinex with colour restoration algorithm (MSRCR) combines colour constancy with local contrast enhancement so images are rendered similarly to how human vision is believed to operate.

Drop Shape Analysis is a collection of two methods (DropSnake and LBADSA) for high-accuracy measure of contact angles for drop measurement.

This plugin performs Strahler analysis on topographic skeletons (2D/3D). Strahler numbering is a numerical procedure that summarizes the branching complexity of mathematical trees.

This plugin allows to analyze the local direction and frequency of sinusoidal waves, for example muscle repetitive stripy pattern.

The output are optionally smoothed lambda (inversely proportional to the frequency) and phi (direction in degrees).