Binary

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

Threshold

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

Apply CLAHE

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

Bleaching correction

Apply histogram matching bleaching correction to a specified image.

Colour deconvolution

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 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.

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.

Plot kymograph

Project image

Project an image along the z-axis into the xy-plane.

Weka probability maps

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).