reduceStack

Reduces the number of slices in a stack by a given factor. With the offset you have control which slices stay:

With factor 3 and offset 0, slices 0, 3, 6,… are kept. * With factor 4 and offset 1, slices 1, 5, 9,… are kept.

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

reduceStack is often followed by

combineHorizontally (4)

Usage in ImageJ macro

Ext.CLIJ2_reduceStack(Image input, Image destination, Number reduction_factor, Number offset);

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 input = clij2.push(inputImagePlus);
destination = clij2.create(input);
int reduction_factor = 10;
int offset = 20;

// Execute operation on GPU
clij2.reduceStack(input, destination, reduction_factor, offset);

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

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

Matlab

% init CLIJ and GPU
clij2 = init_clatlab();

% get input parameters
input = clij2.pushMat(input_matrix);
destination = clij2.create(input);
reduction_factor = 10;
offset = 20;

% Execute operation on GPU
clij2.reduceStack(input, destination, reduction_factor, offset);

% show result
destination = clij2.pullMat(destination)

% cleanup memory on GPU
clij2.release(input);
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
input_sequence = getSequence();
input = clij2.pushSequence(input_sequence);
destination = clij2.create(input);
reduction_factor = 10;
offset = 20;

// Execute operation on GPU
clij2.reduceStack(input, destination, reduction_factor, offset);

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

clEsperanto Python (experimental)

import pyclesperanto_prototype as cle

cle.reduce_stack(input, destination, reduction_factor, offset)

Example scripts

reduceAndCombineImages.ijm

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