2011 Winter Project Week:Atlas Registration in Slicer3

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Home < 2011 Winter Project Week:Atlas Registration in Slicer3

Key Investigators

  • UPenn: Daniel Haehn, Kilian Pohl
  • BWH: Dominik Meier
  • BWH: Ryan Eckbo


We want to create an Atlas Registration tool in Slicer3.

Approach, Plan

A simple Atlas Creator was created and is available in Slicer3 nightly builds. Manual segmentations containing multiple labels are supported and get registered via BRAINSTools as an atlas for each label and as a combined atlas.

During the project week, we want to leverage expertise from Registration experts to extend and optimize the functionality.


Project Week Update: We fixed the Atlas Creator to work with the latest 3D Slicer3 trunk on all platforms. Valuable feedback was provided by potential users and collaborators. Thank you!

Delivery Mechanism

This work will be delivered to the NA-MIC Kit as a (please select the appropriate options by noting YES against them below)

  1. ITK Module
  2. Slicer Module
    1. Built-in
    2. Extension -- commandline
    3. Extension -- loadable [X]
  3. Other (Please specify)


  • L. Zöllei, M. Shenton, W.M. Wells III, K.M. Pohl. The Impact of Atlas Formation Methods on Atlas-Guided Brain Segmentation, Statistical Registration. In Pair-wise and Group-wise Alignment and Atlas Formation Workshop at MICCAI 2007: Tenth International Conference on Medical Image Computing and Computer-Assisted Intervention, pp. 39 - 46, Brisbane, Australia, 2007.