ITK-SNAP

ITK-SNAP is an open-source software application for medical image segmentation. Its primary use is for delineating anatomical structures and regions in MRI, CT, Ultrasound and other three-dimensional medical imagescite journal
author = Spangler, E.L.
coauthors = Brown, C.; Roberts, J.A.; Chapman, B.E.
year = 2007
title = Evaluation of internal carotid artery segmentation by InsightSNAP
journal = Proceedings of SPIE
volume = 6512
pages = 65123F
url = http://link.aip.org/link/?PSISDG/6512/65123F/1
accessdate = 2007-11-08
doi = 10.1117/12.709954] cite journal
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coauthors = Werner-wasik, M.; Curran, W.; Galvin, J.
year = 2006
title = SU-EE-A2-03: Evaluation of Auto-Segmentation Tools for the Target Definition for the Treatment of Lung Cancer
journal = Medical Physics
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year = 2007
title = OP13. 04: Accuracy of six sonographic signs in the prenatal dignosis of spina bifida
journal = Ultrasound in Obstetrics and Gynecology
volume = 30
issue = 4
pages = 498–498
url = http://www.ingentaconnect.com/content/jws/uog/2007/00000030/00000004/art00428
accessdate = 2007-11-08
doi = 10.1002/uog.4534] cite conference
author = Rizzi, S.H.
coauthors = Banerjee, P.P.; Luciano, C.J.
year = 2007
title = Automating the Extraction of 3D Models from Medical Images for Virtual Reality and Haptic Simulations
conference =
booktitle = Automation Science and Engineering, 2007. CASE 2007. IEEE International Conference on
pages = 152-157
publisher =
url = http://ieeexplore.ieee.org/xpls/abs_all.jsp?arnumber=4341748
conferenceurl = ] cite journal
author = Cavidanes, L.H.
coauthors = Styner, M.; Proffit, W.R.
year = 2006
title = Image analysis and superimposition of 3-dimensional cone beam computed tomography models
journal = American Journal of Orthodontics and DentoFacial Orthopedics
volume = 129
issue = 5
pages = 611–618
url = http://linkinghub.elsevier.com/retrieve/pii/S0889540605012758
accessdate = 2007-11-08
doi = 10.1016/j.ajodo.2005.12.008] cite journal
author = Krishnan, S.
coauthors = Slavin, M.J.; Tran, T.T.; Doraiswamy, P.M.; Petrella, J.R.
year = 2006
title = Accuracy of spatial normalization of the hippocampus: implications for fMRI research in memory disorders
journal = Neuroimage
volume = 31
issue = 2
pages = 560–571
url = http://linkinghub.elsevier.com/retrieve/pii/S1053811906000115
accessdate = 2007-11-08
doi = 10.1016/j.neuroimage.2005.12.061] .

ITK-SNAP can be used in two modes. The first mode is manual delineation, where the user traces the boundaries of structures in three orthogonal slice planes through the medical image. The second mode is automatic segmentation, which uses the level set method. The user places one or more seeds in the image, and seeds grow constrained by intensity edges in the image. In neuroimaging, ITK-SNAP is used to segment the hippocampus (in manual mode), ventricles (in automatic mode), caudate nucleus (automatic mode with manual touchup), and many other structures of interest.

History

ITK-SNAP was developed by image analysis researchers at the University of Pennsylvania and University of North Carolina at Chapel Hillcite journal
author = Yushkevich, P.A.
coauthors = Piven, J.; Hazlett, H.C.; Smith, R.G.; Ho, S.; Gee, J.C.; Gerig, G.
year = 2006
title = User-guided 3D active contour segmentation of anatomical structures: Significantly improved efficiency and reliability
journal = Neuroimage
volume = 31
issue = 3
pages = 1116–28
url = http://linkinghub.elsevier.com/retrieve/pii/S1053811906000632
accessdate = 2007-11-08
doi = 10.1016/j.neuroimage.2006.01.015] . Development began at UNC as a series of graduate student projects in the Computer Science Department. Subsequent development was funded by the National Library of Medicine and performed at the PICSL group [http://picsl.upenn.edu] at the Department of Radiology at the University of Pennsylvania.

External links

* [http://itksnap.org Main ITK-SNAP website] (downloads, bugs, mailing lists)
* [http://sourceforge.net/projects/itk-snap ITK-SNAP on Sourceforge]

References