SimpleITK/Advisory Review Board

• Harvey Cline, Kitware Inc.
• Raghu Machiraju, The State University of Ohio
• John Galeotti, CMU
• Hans Johnson, University of Iowa
• Fabrice de Chaumont, Pasteur Institute
• New students in the UNC CISMM project (taylorr@cs.unc.edu)
• Jesus Caban, NLM-NIH

ARB Prototype Code

Gaussian Blur

• Open an image
• Filter the image with a Gaussian blur using sigma = 2
• Write the image back out

Procedural

// Read the image
Image::Pointer im = ImageFileReader::Execute("sample/path/to/image.jpg");

// Apply Gaussian with sigma = 2
im = GaussianFilter::Execute(im, 2);

// Write out the image
ImageFileWriter::Execute(im, "sample/path/to/output.png");

Filter Blocks

// Read the image
ImageFileReader reader;
reader.SetFilename( "sample/path/to/image.jpg" );
Image::Pointer im = reader.execute();

// Apply Gaussian with sigma = 2
Gaussian filter;
filter.SetSigma( 2 );
im = filter.execute( im );

// Write out the image
ImageFileWriter writer;
writer.SetFilename( "sample/path/to/output.png" );
writer.execute( im );

Pipelined

// Read the image
ImageFileReader reader;
reader.SetFilename( "sample/path/to/image.jpg" );

// Apply Gaussian with sigma = 2
Gaussian filter;
filter.SetSigma( 2 );
filter.SetInput( reader.getOutput() );

// Write out the image
ImageFileWriter writer;
writer.SetFilename( "sample/path/to/output.png" );
writer.SetInput( filter->GetOutput() );

// Execute the pipieline
writer.Update();

Image Registration

• Open two images (one fixed, one moving)
• Register the moving image to the fixed image using affine registration
• Resample the moving image using the computed transform
• Write the resampled image out

Procedural

// Open the fixed and moving images
ImageFileReader reader;
Image::Pointer fixedImage = reader.execute( "path/to/fixed.jpg" );
Image::Pointer movingImage = reader.execute( "path/to/moving.jpg" );

// Register the moving image to the fixed image
AffineRegistrator registrator;
AffineTransform transform;
transform = registrator.execute( fixedImage, movingImage );

// Resample the moving image
Resampler resampler;
movingImage = resampler.execute( movingImage, transform );

// Write out the resampled image
ImageFileWriter writer;
writer.ececute( movingImage, "path/to/output.png" );

Filter blocks

// Open the fixed and moving images
ImageFileReader reader;
reader.SetFilename( "path/to/fixed.jpg" );
Image::Pointer fixedImage = reader.execute();
reader.SetFilename( "path/to/moving.jpg" );
Image::Pointer movingImage = reader.execute();

// Register the moving image to the fixed image
AffineRegistrator registrator;
registrator.SetFixedImage( fixedImage );
registrator.SetMovingImage( movingImage );
AffineTransform transform;
transform = registrator.execute();

// Resample the moving image
Resampler resampler;
resampler.SetTransform( transform );
movingImage = resampler.execute( movingImage );

// Write out the resampled image
ImageFileWriter writer;
writer.SetFilename( "path/to/output.png" );
writer.ececute( movingImage );

Pipeline

// Open the fixed and moving images
ImageFileReader reader1;
ImageFileReader reader2;
reader1.SetFilename( "path/to/fixed.jpg" );
reader2.SetFilename( "path/to/moving.jpg" );

// Register the moving image to the fixed image
AffineRegistrator registrator;
registrator.SetFixedImage( reader1.GetOutput() );
registrator.SetMovingImage( reader2.GetOutput() );

// Resample the moving image
Resampler resampler;
resampler.SetInput( reader2.GetOutput() );
resampler.SetTransform( registrator.GetOutput() );

// Write out the resampled image
ImageFileWriter writer;
writer.SetFilename( "path/to/output.png" );
writer.SetInput( movingImage );

// Execute the pipeline
writer.Update();