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Fill regions in images.

Computes the distance map transform of a binary image. The distance map is a matrix which contains for each pixel the distance to its nearest background pixel.

This plug-in implements fast active contours for image segmentation. Their representation in terms of spline curves allows for a natural and intuitive manipulation of the active contour through control points.

Based on Delgado-Gonzalo et al. "Snakes on a Plane: A Perfect Snap for Bioimage Analysis"

• Counts the number of 3D objects in a stack.
• quantifies for each found object the following parameters:
  • 3D intensity related measurement (with possible redirection to an image with the actual intensity value to be measured, for example for two channels measurements)
  • Volume and shape factors measurements, surface etc...
• generates results representations such as:
  • Objects' map;
  • Surface voxels' map;
  • Centroids' map;
  • Centres of masses' map.

Select a portion of a sequence in all 5 dimensions.

This plugin combines the idea of using fiduciary markers, local descriptors and geometric hashing and applies global optimization. It can register an arbitrary number of partially overlapping point clouds. It is robust with respect to the amount of incorporated beads, bead distribution, amount of overlap, and can reliably detect non-affine disturbances (e.g. abrupt agarose movement) that might occur during imaging.

This plugin parses arbitrary mathematical expressions and compute results using images as variables.