SimpleITK Image-Analysis Notebooks: a Collaborative Environment for Education and Reproducible Research

• DOI: 10.1007/s10278-017-0037-8
• Publication Date: 2017-11-27T21:02:03Z
• Authors: Ziv Yaniv; Bradley C. Lowekamp; Hans J. Johnson; Richard Beare
• Keywords: Interface (matter); Graphical user interface

Abstract Modern scientific endeavors increasingly require team collaborations to construct and interpret complex computational workflows. This work describes an image-analysis environment that supports the use of tools facilitate reproducible research support scientists with varying levels software development skills. The Jupyter notebook web application is basis enables flexible, well-documented, workflows via literate programming. Image-analysis made accessible programming experience SimpleITK toolkit, a simplified interface Insight Segmentation Registration Toolkit. Additional features include user friendly data sharing using online repositories testing framework facilitates code maintenance. provides large number examples illustrating educational research-oriented image analysis for free download from GitHub under Apache 2.0 license: github.com/InsightSoftwareConsortium/SimpleITK-Notebooks .