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Group-wise Registration in NAMIC-kit. Serdar K Balci (MIT) Lilla Zöllei (MGH) Kinh Tieu (BWH) Mert R Sabuncu (MIT) Polina Golland (MIT). Robust Group-wise Registration. Entropy based group-wise registration ITK implementation Empirical Evaluation.

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Group-wise Registration in NAMIC-kit

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Group wise registration in namic kit

Group-wise Registration in NAMIC-kit

Serdar K Balci (MIT)

LillaZöllei (MGH)

KinhTieu (BWH)

Mert R Sabuncu (MIT)

PolinaGolland (MIT)

Robust group wise registration

Robust Group-wise Registration

  • Entropy based group-wise registration

  • ITK implementation

  • Empirical Evaluation

Background groupwise registration

Background: Groupwise Registration

  • Images Transforms

  • Transforms:

    • Affine

    • Non-rigid using B-Splines

Registering to the mean of the population

Registering to the Mean of the Population

Groupwise registration congealing

Groupwise Registration: Congealing

L . Zöllei, E. Learned-Miller, E. Grimson, W.M. Wells III.

"Efficient Population Registration of 3D Data."

Congealing intuition

Congealing: Intuition

  • If Gaussian

  • If also

    • Registering to the mean with LS metric



  • ITK classes

    • Group-wise registration using congealing

      • Variance

      • Entropy



Before Affine BS 4 BS 8 BS 16



Overlap measures

Overlap Measures

Full term babies

Full Term Babies

Before Affine BS 4

BS 8 BS 16 BS 32

Pre term babies

Pre Term Babies

Before Affine BS 4

BS 8 BS 16



  • Implemented group-wise registration in ITK

    • Congealing: Entropy based registration

    • Affine and BSpline

    • Multithreaded implementation

    • *Bspline optimization

  • Initial Evaluation

    • A population of 50 subjects

    • Used segmentation labels to evaluate

Ongoing work

Ongoing Work

  • Finding optimal parameters

    • B-Spline mesh size,

    • # of hierarchical levels

    • Subsampling

  • Quantitative comparison to other methods

    • Pair-wise registration to the mean using MI

Congealing with two images

Congealing with Two Images

  • Using Parzen windows

  • As we only have two images

  • Pairwise registration using LS metric

Groupwise reg using pairwise reg

Groupwise Reg. using Pairwise Reg.

  • If we assume that images are independent given a subject, representative of the population

Registering to the mean

Registering to the mean

  • We assume independence over images

  • and draw i.i.d. samples from each image

Groupwise registration using joint entropy

Groupwise Registration using Joint Entropy

  • Assume i.i.d over space, but don’t make any assumptions about images

  • Estimating entropy of an N-dimensional distribution is a challenging task

Results congealing with entropy

Results: Congealing with Entropy

Before After (B-Splines ~20mm)

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