GPU accelerated image processing for everyone

Takes two labelmaps with n and m labels and generates a (n+1)*(m+1) matrix where all pixels are set to 0 exept those where labels overlap between the label maps.

For example, if labels 3 in labelmap1 and 4 in labelmap2 are touching then the pixel (3,4) in the matrix will be set to 1.

Categories: Graphs, Labels, Measurements, Binary

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

- pushString (2)

- print (1)

```
Ext.CLIJ2_generateBinaryOverlapMatrix(Image label_map1, Image label_map2, Image binary_overlap_matrix_destination);
```

// init CLIJ and GPU import net.haesleinhuepf.clij2.CLIJ2; import net.haesleinhuepf.clij.clearcl.ClearCLBuffer; CLIJ2 clij2 = CLIJ2.getInstance(); // get input parameters ClearCLBuffer label_map1 = clij2.push(label_map1ImagePlus); ClearCLBuffer label_map2 = clij2.push(label_map2ImagePlus); binary_overlap_matrix_destination = clij2.create(label_map1);

// Execute operation on GPU clij2.generateBinaryOverlapMatrix(label_map1, label_map2, binary_overlap_matrix_destination);

// show result binary_overlap_matrix_destinationImagePlus = clij2.pull(binary_overlap_matrix_destination); binary_overlap_matrix_destinationImagePlus.show(); // cleanup memory on GPU clij2.release(label_map1); clij2.release(label_map2); clij2.release(binary_overlap_matrix_destination);

% init CLIJ and GPU clij2 = init_clatlab(); % get input parameters label_map1 = clij2.pushMat(label_map1_matrix); label_map2 = clij2.pushMat(label_map2_matrix); binary_overlap_matrix_destination = clij2.create(label_map1);

% Execute operation on GPU clij2.generateBinaryOverlapMatrix(label_map1, label_map2, binary_overlap_matrix_destination);

% show result binary_overlap_matrix_destination = clij2.pullMat(binary_overlap_matrix_destination) % cleanup memory on GPU clij2.release(label_map1); clij2.release(label_map2); clij2.release(binary_overlap_matrix_destination);

// init CLIJ and GPU importClass(net.haesleinhuepf.clicy.CLICY); importClass(Packages.icy.main.Icy); clij2 = CLICY.getInstance(); // get input parameters label_map1_sequence = getSequence(); label_map1 = clij2.pushSequence(label_map1_sequence); label_map2_sequence = getSequence(); label_map2 = clij2.pushSequence(label_map2_sequence); binary_overlap_matrix_destination = clij2.create(label_map1);

// Execute operation on GPU clij2.generateBinaryOverlapMatrix(label_map1, label_map2, binary_overlap_matrix_destination);

// show result binary_overlap_matrix_destination_sequence = clij2.pullSequence(binary_overlap_matrix_destination) Icy.addSequence(binary_overlap_matrix_destination_sequence); // cleanup memory on GPU clij2.release(label_map1); clij2.release(label_map2); clij2.release(binary_overlap_matrix_destination);

import pyclesperanto_prototype as cle cle.generate_binary_overlap_matrix(label_map1, label_map2, binary_overlap_matrix_destination)