Software in 3D Slicer

Our group has contributed the following software tools to 3D Slicer, a freely available, open-source, software package for analyzing medical scans:
  • AtlasCreator: capturing the anatomical variation within a population with respect to intensity, spatial location, and shape.
    Created by Daniel Haehn, Kilian Pohl
  • Annotation : comprehensive framework for annotation and markup of medical scans. SPL has taken over maintenance and further development of the tool.
    Created by Daniel Haehn, Kilian Pohl, Yong Zhang
  • Change Tracker: a tool for quantification of the subtle changes in pathology. SPL has taken over maintenance and further development of the tool.
    Created by Kilian Pohl
  • EMSegmenter: an automatic segmentation approach for medical scans. Use cases are MR brain images, CT Hand Bone scans, and many more. We currently also offer the service of adopting the tool to new use cases.
    Created by Dominique Belhachemi, Brad Davis, Daniel Haehn, Kilian Pohl
  • Scene View: Graphical browser for scenes saved in Slicer. SPL has taken over maintenance and further development of the tool.
    Created by Daniel Haehn, Kilian Pohl
  • sviewer: A simple viewer for 3D and 4D MRI images based on slicer core technology.
    Created by Kilian Pohl

Other Software Package

  • BASIS Development environment accompanying tools for testing and packaging software across platforms and languages
    Created by Kilian Pohl, Andreas Schuh
  • GLISTR: The first software package for automatically segmenting glioma and healthy tissue from MR brain scans.
    Created by Christos Davatzikos, Ali Gooya, Kilian Pohl, Andreas Schuh
  • Scalable Informatics for Biomedical Imaging Studies (SIBIS): An IT infrastructure for uploading behavioral and imaging data through application programming interfaces to a central biomedical data repository, querying the data through a web interface, a validated workflow to perform quality control, and a multi-modal image processing pipeline.
    Created by Dongjin Kwon, Nolan Nichols, Kilian M Pohl, Torsten Rohlfing, Yong Zhang