depthColorProjection

Determines a maximum projection of an image stack and does a color coding of the determined arg Z (position of the found maximum).

Second parameter is a Lookup-Table in the form of an 8-bit image stack 255 pixels wide, 1 pixel high with 3 planes representing red, green and blue intensities. Resulting image is a 3D image with three Z-planes representing red, green and blue channels.

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_depthColorProjection(Image source, Image lookup_table, Image destination_max, Number min_display_intensity, Number max_display_intensity);

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);
ClearCLBuffer lookup_table = clij2.push(lookup_tableImagePlus);
destination_max = clij2.create(source);
float min_display_intensity = 1.0;
float max_display_intensity = 2.0;

// Execute operation on GPU
clij2.depthColorProjection(source, lookup_table, destination_max, min_display_intensity, max_display_intensity);

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

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

Matlab

% init CLIJ and GPU
clij2 = init_clatlab();

% get input parameters
source = clij2.pushMat(source_matrix);
lookup_table = clij2.pushMat(lookup_table_matrix);
destination_max = clij2.create(source);
min_display_intensity = 1.0;
max_display_intensity = 2.0;

% Execute operation on GPU
clij2.depthColorProjection(source, lookup_table, destination_max, min_display_intensity, max_display_intensity);

% show result
destination_max = clij2.pullMat(destination_max)

% cleanup memory on GPU
clij2.release(source);
clij2.release(lookup_table);
clij2.release(destination_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);
lookup_table_sequence = getSequence();
lookup_table = clij2.pushSequence(lookup_table_sequence);
destination_max = clij2.create(source);
min_display_intensity = 1.0;
max_display_intensity = 2.0;

// Execute operation on GPU
clij2.depthColorProjection(source, lookup_table, destination_max, min_display_intensity, max_display_intensity);

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

Example scripts

depth_colour_projection.ijm

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