Semi-automatic landmark point annotation for geometric morphometrics

Frontiers in Zoology

Volumn 11, Issue 1, 2014, Pages

  Bromiley, Paul A ^a   Schunke, Anja C ^b   Ragheb, Hossein ^a   Thacker, Neil A ^a   Tautz, Diethard ^b  

^a UNIVERSITY OF MANCHESTER   (United Kingdom)

^b MAX PLANCK INSTITUTE FOR EVOLUTIONARY BIOLOGY   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

EID: 84910090166     PISSN: None     EISSN: 17429994     Source Type: Journal    
DOI: 10.1186/s12983-014-0061-1     Document Type: Article

References (55)

1. Bookstein F: Morphometric Tools For Landmark Data, Cambridge: Cambridge University Press; 1991..
2. Kendall DG: Shape manifolds, procrustean metrics, and complex projective spaces. Bull Lond Math Soc1984, 16(2):81-121..
3. Boell L, Tautz D: Micro-evolutionary divergence patterns of mandible shapes in wild house mouse (Mus musculus) populations. BMC Evol Biol2011, 11:306..
4. Cardini A, Elton S: Does the skull carry a phylogenetic signal? Evolution and modularity in the guenons. Biol J Linn Soc2008, 93:813-834..
5. von Cramon-Taubadel N: Global human mandibular variation reflects differences in agricultural and hunter-gatherer subsistance strategies. PNAS2011, 108(49):19546-19551.
6. Meloro C, O'Higgins P: Ecological adaptations of mandibular form in fissiped carnivora. J Mamm Evol2011, 18:185-200..
7. Breuker CJ, Patterson JS, Klingenberg CP: A single basis for developmental buffering of Drosophila wing shape. PLoS ONE2006, 1:e7..
8. Schunke AC, Bromiley PA, Tautz D, Thacker NA: TINA manual landmarking tool: software for the precise digitization of 3D landmarks. Front Zool2012, 9(6):1-5..
9. Lacroute P, Levoy M: Fast volume rendering using a shear-warp factorization of the viewing transform. In Proc. SIGGRAPH '94, July 24-29 Orlando, Florida. New York USA: ACM; 1994:451-458..
10. Lacroute P, Levoy M: The Volpack Volume Rendering Library. [http://graphics.stanford.edu/software/volpack/].
11. Frantz S, Rohr K, Stiehl HS: Development and validation of a multi-step approach to improved detection of 3D point landmarks in tomographic images. Image Vis Comput2005, 233(11):956-971..
12. Liu J, Gao W, Huang S, Nowinski WL: A model-based, semi-global segmentation approach for automatic 3-D point landmark localization in neuroimages. IEEE Trans Med Imaging2008, 27(8):1034-1044..
13. Hill DLG, Batchelor PG, Holden M, Hawkes DJ: Medical image registration. Phys Med Biol2001, 46:R1-R45..
14. Wyawahare MV, Patil PM, Abhyankar HK: Image registration techniques: an overview. Int J Signal Process Image Process Pattern Recogn2009, 2(3):11-28..
15. Oliveira FPM, Tavares JMRS: Medical image registration: a review. Comput Methods Biomech Biomed Engin2012, 17(2):1-21..
16. Mani VRS, Arivazhagan S: Survey of medical image registration. J Biomed Eng Tech2013, 1(2):8-25.
17. Audette MA, Ferrie FP, Peters TM: An algorithmic overview of surface registration techniques for medical imaging. Med Image Anal2000, 4:201-217..
18. van Kaick O, Zhang H, Hamarneh G, Cohen-Or D: A survey on shape correspondence. Comput Graph Forum2011, 30(6):1681-1707..
19. Tam GKL, Cheng ZQ, Lai YK, Langbein FC, Liu Y, Marshall D, Martin RR, Sun XF, Rosin PL: Registration of 3D point clouds and meshes: a survey from rigid to nonrigid. IEEE Trans Vis Comput Graph2013, 19(7):1199-1217..
20. Sotiras A, Davatzikos C, Paragios N: Deformable medical image registration: a survey. IEEE Trans Med Imaging2013, 32(7):1153-1190..
21. Lau YH, Braun M, Hutton BF: Non-rigid image registration using a median-filtered coarse-to-fine displacement field and a symmetric correlation ratio. Phys Med Biol2001, 46:1297-1319..
22. Collignon A, Maes F, Delaere D, Vandermeulan D, Suetens P, Marchal G: Automated multi-modality image registration based on information theory. In Information Processing in Medical Imaging. Edited by Bizais Y, Barillot C, Paola RD. Dordrecht: Kulwer, Academic; 1995:263-274.
23. Viola P, Wells WM: Alignment by maximisation of mutual information. In Proceedings ICCV'95. Cambridge, MA, USA: IEEE Computer Society Press; 1995:16..
24. Viola P, Wells WM: Alignment by maximisation of mutual information. Int J Comput Vis1997, 24(2):137-154..
25. Studholme C, Hill DLG, Hawkes DJ: An overlap invariant entropy measure of 3D medical image alignment. Pattern Recogn1999, 32:71-86..
26. Malsch U, Thieke C, Huber PE, Bendl R: An enhanced block matching algorithm for fast elastic registration in adaptive radiotherapy. Phys Med Biol2006, 51(19):4789-4806..
27. Bookstein F: Principal warps: thin-plate splines and the decomposition of deformations. IEEE Trans Pattern Anal Mach Intell1989, 11:567-585..
28. Söhn M, Birkner M, Chi Y, Wang J, Yan D, Berger B, Alber M: Model-independent, multimodality deformable image registration by local matching of anatomical features and minimization of elastic energy. Med Phys2008, 35(3):866-878..
29. Erdt M, Steger S, Wesarg S: Deformable registration of MR images using a hierarchical patch based approach with a normalized metric quality measure. In Biomedical Imaging (ISBI), 2012 9th IEEE International Symposium on. Barcelona, Spain: IEEE Computer Society Press; 2012:1347-1350..
30. Bromiley PA, Pokrić M, Thacker NA: Computing covariances for mutual information coregistration. In Proc. MIUA'04. UK: BMVA Press; 2004:77-80..
31. Bromiley PA, Pokrić M, Thacker NA: Emprical evaluation of covariance estimates for mutual information coregistration. In Proc. MICCAI'04. Saint-Malo, France: Springer-Verlag; 2004:607-614.
32. Rohr K, Stiehl HS, Sprengel R, Buzug TM, Weese J, Kuhn MH: Landmark-based elastic registration using approximating thin-plate splines. IEEE Trans Med Imaging2001, 20(6):526-534..
33. Kim M, Wu G, Shen D: Sparse patch-guided deformation estimation for improved image registration. In Machine Learning in Medical Imaging, Volume 7588 of Lecture Notes in Computer Science. Edited by Wang F, Shen D, Yan P, Suzuki K. Berlin, Heidelberg, Germany: Springer-Verlag; 2012:54-62..
34. Canny J: A computational approach to edge detection. IEEE Trans Pattern Anal Mach Intell1986, 8(6):679-698..
35. Cootes TF, Taylor CJ: Active shape models - 'smart snakes'. In Proc. British Machine Vision Conference (BMVC'92). London: Springer-Verlag; 1992:266-275..
36. Cootes TF, Taylor CJ, Cooper D, Graham J: Active shape models - their training and application. Comput Vis Image Understand1995, 61:38-59..
37. Cootes TF, Edwards GJ, Taylor CJ: Active appearance models. IEEE Trans Pattern Anal Mach Intell2001, 23:681-685..
38. Cristinacce D, Cootes TF: Automatic feature localisation with constrained local models. J Comput Vis2005, 61:55-79..
39. Felzenswalb P, Hutenocher D: Pictorial structures for object recognition. Int J Comput Vis2005, 61:55-79..
40. Heimann T, Meinzer H: Statistical shape models for 3D medical image segmentation: a review. Med Image Anal2009, 13(4):543-563..
41. Palaniswamy S, Thacker NA, Klingenberg CP: Automatic identification of morphometric landmarks in digital images. In Proc. BMVC'07, 10-13 September, Warwick, U.K. UK: BMVA Press; 2007:112..
42. Palaniswamy S, Thacker NA, Klingenberg CP: Automated landmark extraction in digital images - performance evaluation. In ProcVIE'08, July 19 - Aug 1, Xi'an, China. UK: IET; 2008.
43. Ballard DH: Generalizing the hough transform to detect arbitrary shapes. Pattern Recogn1981, 13:111-122..
44. Gall J, Lempitsky V: Class-specific hough forests for object detection. In Proc. IEEE Conference on Computer Vision and Pattern Recognition (CVPR'09). New York USA: IEEE Computer Society Press; 2009:1022-1029..
45. Cootes TF, Ionita MC, Lindner C, Sauer P: Robust and accurate shape model fitting using random forest regression voting. In Proc. ECCV'12; 2012:278-291..
46. Breiman L: Random forests. Mach Learn2001, 45:5-32..
47. Nelder JA, Meade R: A simplex method for function minimisation. Comput J1965, 7:308-313..
48. Ragheb H, Thacker NA: Quantitative localisation of manually defined landmarks. In Proc. MIUA'11, 14-15 July, London, U.K. UK: BMVA Press; 2011:221-225..
49. Lane RA, Thacker NA, Seed NL: Stretch-correlation as a real-time alternative to feature-based stereo matching algorithms. Image Vis Comput1994, 12(4):203-212..
50. Olsen SI: Estimation of noise in images: an evaluation. CVGIP: Graph Models Image Process1993, 55:319-323..
51. Condon JJ: Errors in elliptical Gaussian fits. Publ Astron Soc Pacs1997, 109(732):166-172..
52. Valstar MF, Martinez B, Binefa X, Pantic M: Facial point detection using boosted regression and graph models. In Proc. CVPR. New York USA: IEEE Computer Society Press; 2010:2729-2736..
53. Lindner C, Thiagarajah S, Wilkinson JM, arcOGEN Consortium T, Wallis GA, Cootes TF: Fully automatic segmentation of the proximal femur using random forest regression voting. IEEE Trans Med Imag2013, 32(8):1462-1472..
54. Ragheb H, Thacker NA, Bromiley PA, Tautz D, Schunke AC: Quantitative shape analysis with weighted covariance estimates for increased statistical efficiency. Front Zool2013, 10(16):1-23..
55. Barlow R: Statistics: A Guide to the use of Statistical Methods in the Physical Sciences, 1st edition, Chichester: John Wiley and Sons; 1989..