June 26, 2015 Software Open Access

SimpleElastix: SimpleElastix v0.9.0

Bradley Lowekamp; gabehart; Daniel Blezek; Luis Ibanez; Matt McCormick; Dave Chen; Dan Mueller; David Cole; Hans Johnson; Kasper Marstal; Richard Beare; Arnaud Gelas; Kent Williams; David Doria; Brad King

SimpleElastix is a fork of SimpleITK that integrates elastix and transformix. The goal of SimpleElastix is to bring robust registration algorithms to a wider audience and make it easier to use elastix for e.g. Java-based enterprise applications or rapid Python prototyping. This package provides

• elastix and transformix bindings for Python, Java, R, Ruby, Octave, Lua, Tcl and C# (see elastix manual for a list of supported registration algorithms).
• Installation, examples, usage and introductory material at simpleelastix.readthedocs.org.
• A user-friendly API that aligns with the design philosophy of SimpleITK, developed specifically for rapid prototyping and use in scripting languages.
• Pre-configured parameter files that should serve as good starting points for new users.
• A SuperBuild that automatically compiles and installs SimpleElastix and any dependencies.
• The complete set of SimpleITK image processing algorithms.

It is our hope that this package will lower the entry barrier for new elastix users and that it will be a useful alternative to scripting command line arguments in larger projects. If you experience any issues using SimpleElastix, pull requests and issues on Github are greatly appreciated.