MATLAB example of writing tiled pyramidal OME-TIFF using the Bio-Formats API

writePyramidOMETIFF.m

writer = loci.formats.out.PyramidOMETiffWriter();

I0 = imread('rice.png');
I = cell(3,1);
I{1} = imresize(I0, 8);
I{2} = imresize(I0, 4);
I{3} = imresize(I0, 2);
I{4} = I0;

metadata = createMinimalOMEXMLMetadata(I{1});
toInt = @(x) javaObject('ome.xml.model.primitives.PositiveInteger', ...
                        javaObject('java.lang.Integer', x));
metadata.setResolutionSizeX(toInt(1024), 0, 1);
metadata.setResolutionSizeX(toInt(512), 0, 2);
metadata.setResolutionSizeX(toInt(256), 0, 3);
metadata.setResolutionSizeY(toInt(1024), 0, 1);
metadata.setResolutionSizeY(toInt(512), 0, 2);
metadata.setResolutionSizeY(toInt(256), 0, 3);

writer.setWriteSequentially(true);
writer.setMetadataRetrieve(metadata);
writer.setCompression('zlib');
writer.setBigTiff(true);

writer.setTileSizeX(256);
writer.setTileSizeY(256);
writer.setId('test.ome.tiff');

% Save planes to the writer
for i = 1 : 4
    writer.setResolution(i - 1);
    writer.saveBytes(0, I{i}(:));
end
writer.close();