Semi-automated

The purpose of this plugin is to register—in other words, to align or to match—two images, one of them being called the source image and the other the target image.

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Coloc 2 is Fiji's plugin for colocalization analysis. It implements and performs the pixel intensity correlation over space methods of Pearson, Manders, Costes, Li and more, for scatterplots, analysis, automatic thresholding and statistical significance testing.

Coloc 2 does NOT perform object based colocalization measurements, where objects are first segmented from the image, then their spatial relationships like overlap etc. are measured. This complementary approach is implemented in many ways elsewhere.

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Provides a selection of spatial, separable and customizable filters in 1D and 2D, with OpenCL implementation if supported.

This originally came from this module.

Currently it is available as the ilastik CellProfiler plugin (see this image.sc post for details).