reference_subtractImages.md

subtractImages

Subtracts one image X from another image Y pixel wise.

f(x, y) = x - y

Category: Math

subtractImages often follows after

• automaticThreshold (2)
• gaussianBlur3D (2)
• minimumYProjection (3)
• medianSliceBySliceSphere (2)
• maximum3DBox (2)
• resultsTableToImage2D (3)
• dilateBox (2)

subtractImages is often followed by

• downsample2D (2)
• absolute (3)
• transposeXY (3)
• replaceIntensity (2)

Usage in ImageJ macro

Ext.CLIJ2_subtractImages(Image subtrahend, Image minuend, Image destination);

Usage in object oriented programming languages

Java

// init CLIJ and GPU
import net.haesleinhuepf.clij2.CLIJ2;
import net.haesleinhuepf.clij.clearcl.ClearCLBuffer;
CLIJ2 clij2 = CLIJ2.getInstance();
// get input parameters
ClearCLBuffer subtrahend = clij2.push(subtrahendImagePlus);
ClearCLBuffer minuend = clij2.push(minuendImagePlus);
destination = clij2.create(subtrahend);

// Execute operation on GPU
clij2.subtractImages(subtrahend, minuend, destination);

// show result
destinationImagePlus = clij2.pull(destination);
destinationImagePlus.show();

// cleanup memory on GPU
clij2.release(subtrahend);
clij2.release(minuend);
clij2.release(destination);

Matlab

% init CLIJ and GPU
clij2 = init_clatlab();
% get input parameters
subtrahend = clij2.pushMat(subtrahend_matrix);
minuend = clij2.pushMat(minuend_matrix);
destination = clij2.create(subtrahend);

% Execute operation on GPU
clij2.subtractImages(subtrahend, minuend, destination);

% show result
destination = clij2.pullMat(destination)

% cleanup memory on GPU
clij2.release(subtrahend);
clij2.release(minuend);
clij2.release(destination);

Icy JavaScript

// init CLIJ and GPU
importClass(net.haesleinhuepf.clicy.CLICY);
importClass(Packages.icy.main.Icy);
clij2 = CLICY.getInstance();
// get input parameters
subtrahend_sequence = getSequence();
subtrahend = clij2.pushSequence(subtrahend_sequence);
minuend_sequence = getSequence();
minuend = clij2.pushSequence(minuend_sequence);
destination = clij2.create(subtrahend);

// Execute operation on GPU
clij2.subtractImages(subtrahend, minuend, destination);

// show result
destination_sequence = clij2.pullSequence(destination)
Icy.addSequence(destination_sequence);
// cleanup memory on GPU
clij2.release(subtrahend);
clij2.release(minuend);
clij2.release(destination);

Example scripts

backgroundSubtraction.ijm
topHat.ijm
workflow.ijm
backgroundSubtraction.py

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