Process

Image processing operations which act on a pixel level, such as image filtering or thresholding.

Binary

Image operations which either act binary images. Binary images are 8-bit with 255-intensity background and 0-intensity objects.

See modules
Threshold

Operations binarising images from the workspace. Thresholds can be calculated automatically or applied manually.

See modules
Apply CLAHE

Applies the MPICBG implementation of CLAHE (Contrast Limited Adaptive Histogram Equalization).

Apply DeepImageJ model

Uses DeepImageJ to run Tensorflow and Pytorch models from the BioImage Model Zoo.

Bleaching correction

Apply bleaching correction to a specified image.

Colour deconvolution

Applies the <a href="https://imagej.

Combing correction

Applies an integer pixel row shift to every other row (starting with top-most row).

Filter image

Apply intensity filters to an image (or image stack) in the workspace.

Image calculator

Apply pixel-wise intensity calculations for two images of matching dimensions.

Image math

Applies a mathematical operation to all pixels of the input image stack.

Image type converter

Change the bit-depth of an image stack.

Invert image intensity

Invert intensity of each pixel.

Manually edit image

Displays an image from the workspace, allowing the user to make manual edits, before saving it back into the workspace.

Normalise intensity

Sets the intensity to maximise the dynamic range of the image.

Weka pixel classification

Performs pixel classification using the WEKA Trainable Segmentation plugin.

White balance correction

Apply whitebalance correction to an image based on a reference region (specified as an object).