A Skull-Stripping Filter for ITK

Bauer, Stefan1*,Fejes, Thomas,Reyes, Mauricio
1.University of Bern
Abstract
A Skull-Stripping Filter for ITK

Abstract

Skull-stripping (or brain extraction) is an important pre-processing step in neuroimage analysis. This document describes a skull-stripping filter implemented using the Insight Toolkit ITK, which we named itk::StripTsImageFilter. It is a composite filter based on existing ITK classes. The filter has been implemented with usability, robustness, speed and versatility in mind, rather than accuracy. This makes it useful for many pre-processing tasks in neuroimage analysis. This paper is accompanied by the source code, input data and a testing environment.

Keywords

brain extractionskull-stripping
Manuscript
Source Code and Data

Source Code and Data

.gitignore31 BIJMacros.txt3.4 KBCMakeLists.txt42 BREADME120 BSkullStrip.remote.cmake122 BatlasImage.mha3.4 MBatlasMask.mha56.3 KBbrainweb.mha7.7 MBdocInsightArticle.cls4.1 KBInsightJournal.ist220 BInsightJournal.sty35.2 KBMakefile657 Balgorithm.sty2.2 KBalgorithmic.sty5.4 KBamssymb.sty14.9 KBarticle.aux3.2 KBarticle.bbl5.3 KBarticle.blg178 Barticle.brf609 Barticle.log29.4 KBarticle.out267 Barticle.tex13.1 KBarticle.pdf387 KBdoubleWordCheck.pl410 Barticle.toc393 Bfancyhdr.sty14.4 KBfiguresbrainweb-mask.png83.6 KBbrainweb-stripped.png39.5 KBt1-mask.png10.4 KBct-mask.png50 KBt1c-mask.png68.9 KBt2-mask.png15.1 KBt2f-mask.png29.8 KBfloatflt.sty10.8 KBfncychap.sty10.1 KBskullStrip.bib28.9 KBtimes.sty857 BincludeitkStripTsImageFilter.h4.6 KBitkStripTsImageFilter.hxx28.8 KBitk-module.cmake342 BoutputMaskBaseline.mha63.1 KBtestCMakeLists.txt817 BImageCompare.cxx8 KBskullStripping.cxx4.7 KB

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