argMaximumZProjection

Determines the maximum projection of an image stack along Z.

Furthermore, another 2D image is generated with pixels containing the z-index where the maximum was found (zero based).

Availability: Available in Fiji by activating the update sites clij and clij2. This function is part of clij2_-2.5.0.1.jar.

Usage in ImageJ macro

Ext.CLIJ2_argMaximumZProjection(Image source, Image destination_max, Image destination_arg_max);

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 source = clij2.push(sourceImagePlus);
destination_max = clij2.create(source);
destination_arg_max = clij2.create(source);

// Execute operation on GPU
clij2.argMaximumZProjection(source, destination_max, destination_arg_max);

// show result
destination_maxImagePlus = clij2.pull(destination_max);
destination_maxImagePlus.show();
destination_arg_maxImagePlus = clij2.pull(destination_arg_max);
destination_arg_maxImagePlus.show();

// cleanup memory on GPU
clij2.release(source);
clij2.release(destination_max);
clij2.release(destination_arg_max);

Matlab

% init CLIJ and GPU
clij2 = init_clatlab();

% get input parameters
source = clij2.pushMat(source_matrix);
destination_max = clij2.create(source);
destination_arg_max = clij2.create(source);

% Execute operation on GPU
clij2.argMaximumZProjection(source, destination_max, destination_arg_max);

% show result
destination_max = clij2.pullMat(destination_max)
destination_arg_max = clij2.pullMat(destination_arg_max)

% cleanup memory on GPU
clij2.release(source);
clij2.release(destination_max);
clij2.release(destination_arg_max);

Icy JavaScript

// init CLIJ and GPU
importClass(net.haesleinhuepf.clicy.CLICY);
importClass(Packages.icy.main.Icy);

clij2 = CLICY.getInstance();

// get input parameters
source_sequence = getSequence();
source = clij2.pushSequence(source_sequence);
destination_max = clij2.create(source);
destination_arg_max = clij2.create(source);

// Execute operation on GPU
clij2.argMaximumZProjection(source, destination_max, destination_arg_max);

// show result
destination_max_sequence = clij2.pullSequence(destination_max)
Icy.addSequence(destination_max_sequence);destination_arg_max_sequence = clij2.pullSequence(destination_arg_max)
Icy.addSequence(destination_arg_max_sequence);
// cleanup memory on GPU
clij2.release(source);
clij2.release(destination_max);
clij2.release(destination_arg_max);

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