Published on March 2, 2014
Automated segmentation and motion correction of the fetal brain Kevin Keraudren Imperial College London December 6th , 2013
Problem As the fetuse moves the data is acquired as stacks of misaligned 2D slices 2/12
Problem orthogonal stacks of 2D slices 3D volume 3/12
Definitions recall = Volume of correctly classified voxels Ground truth volume of the brain recall = precision = TP TP + FN Volume of correctly classified voxels Detected volume of the brain precision = TP TP + FP 4/12
Idea 100 80 91% 99% 93% 96% 60 recall precision 40 20 0 Box detection RF/CRF Enlarged Final segmentation segmentation segmentation 5/12
Box detection MSER MSER regions Size filtering Bag-of-SIFT RANSAC Filtering by size and Bag-of-Words 6/12
Box detection 7/12
Brain extraction Random Forest classifier and Conditional Random Field 8/12
Motion correction Slice to volume registration Volume registration Automated masking Acquisition of snapshot images Update slices segmentation Robust statistics and superresolution Reconstructed volume 9/12
Motion correction Conditional Random Field 10/12
Result Tighter mask, less artifacts and brain already extracted 11/12
Acknowledgements Collaborators: Maria Murgasova, Vanessa Kyriakopoulou, Christina Malamateniou, Mary Rutherford, Bernhard Kainz, Jo Hajnal & Daniel Rueckert XKCD for Matplotlib, Latex and Tikz: Jake Vanderplas, Damon McDougall, Johannes Buchner, percusse www.doc.ic.ac.uk/~kpk09/ 12/12
README.md Automated Fetal Brain Segmentation from 2D MRI Slices for Motion Correction. This GitHub repository contains a complete example to segment the ...
Highlights • We automatically segment fetal brain tissues for a fully automated motion correction. • Prior knowledge of the size of the brain is used ...
Automated fetal brain segmentation from 2D MRI slices for motion correction Keraudren, K.; Kuklisova-Murgasova, M.; Kyriakopoulou, V.; Malamateniou, C ...
Publication » Automated Fetal Brain Segmentation from 2D MRI Slices for Motion Correction.
... it is difficult to establish a set of parameters for automated segmentation of fetal brains for all gestational ages. ... (motion correction), ...
,Motion Correction,motion corrected,motions correctness,motion ... Automated fetal brain segmentation from ... Automated Motion Correction for ...
example-motion-correction - Example code for fully automated segmentation and motion correction of the fetal brain in MRI
... slice motion correction and super ... uniformity correction and the fetal brain ... segmentation and volumetry of the fetal brains for ...
Automated fetal brain segmentation from 2D MRI slices for ... Automated fetal brain segmentation from 2D MRI slices for motion correction: Author(s ...