Examples

Contents

• Python
• C++
  • Data import
  • Data export
  • Filtering
  • Segmentation
  • Registration
  • Visualization
  • Graphical user interface
  • Interoperability
  • Extending FAST
• Text pipelines

Python

All the python examples can be found in the repository.

Example	Result
Load an image and display it
Load an whole slide image (WSI) and display it
Convert a numpy ndarray image to a FAST image and display it
Generate tissue patches from a whole slide image WSI
Filter an image in FAST, convert it to numpy ndarrays and display it with matplotlib
Neural network segmentation of ultrasound images using OpenVINO
Capture individual frames of a video file, convert to images and display with matplotlib
Block matching based ultrasound speckle tracking
Stream images from webcamera and apply edge detection
Stream images from Clarius ultrasound scanner and apply a non-local means (NLM) filter

C++ Examples

The C++ examples are located in the bin folder of your downloaded release. The source code of all C++ examples can be found in the repository.

Most of the examples require that you have installed the test data.

Building examples
To build all examples, set the FAST_BUILD_EXAMPLES cmake option. The example executables will be in the bin folder of your build directory. You will find all example source files in the folder source/FAST/Examples.

Data import

Name	Objects used
Import image from file
Stream images from disk	ImageFileStreamer, ImageRenderer
Import mesh from file	VTKMeshFileImporter, TriangleRenderer
Import point set from file	VTKMeshFileImporter, VertexRenderer
Import line set from file	VTKMeshFileImporter, LineRenderer
Stream depth and color data from a Kinect device	KinectStreamer
Import and view whole slide microscopy image	WholeSlideImageImporter, ImagePyramidRenderer
Stream images from Clarius ultrasound scanner	ClariusStreamer

Data export

Name	Objects used

Filtering

Name	Objects used
Gaussian smoothing filter	GaussianSmoothingFilter, ImageFileImporter, ImageRenderer
Non local means filter

Segmentation

Name	Objects used
Binary thresholding	BinaryThresolding, ImageFileImporter, ImageRenderer, SegmentationRenderer
Seeded region growing	SeededRegionGrowingSegmentation, ImageFileImporter, SurfaceExtraction, MeshRenderer
Airway segmentation and centerline extraction	AirwaySegmentation, CenterlineExtraction, ImageFileImporter, SurfaceExtraction, MeshRenderer, LineRenderer
Lung segmentation	LungSegmentation, SurfaceExtraction, MeshRenderer
Neural network ultasound segmentation	SegmentationNetwork, SegmentationRenderer
Neural network CT volume segmentation	SegmentationNetwork, AlphaBlendingVolumeRenderer
Neural network whole slide microscopy image (WSI) segmentation	WholeSlideImageImporter, ImagePyramidRenderer, NeuralNetwork

Registration

Name	Objects used
Iterative closest point	IterativeClosestPoint, VTKPointSetFileImporter, PointRenderer

Visualization

Name	Objects used
Extract surface mesh from volume and visualize it	SurfaceExtraction, MeshRenderer, ImageFileImporter

Graphical user interface

Name	Objects used
Simple GUI to change parameters of algorithms and visualize the result	Window, GaussianSmoothingFilter, SurfaceExtraction, MeshRenderer, ImageFileImporter

Interoperability

Name	Objects used
Use FAST in an existing Qt application	QWidget, ImageFileStreamer, ImageRenderer

Extending FAST

Name	Objects used
Create an algorithm in FAST	ProcessObject, Image

Text pipelines

FAST has a system for defining pipelines using simple text files. This enables you to create processing and visualization pipelines without programming and compiling, making it very easy to test pipelines with different parameters and input data.

• Description of the text pipeline system
• Example pipelines