@Article{Bastien_2016_PlantJournal,
  author    = {Bastien, Renaud and Legland, David and Martin, Marjolaine and Fregosi, Lucien and Peaucelle, Alexis and Douady, Stéphane and Moulia, Bruno and Höfte, Herman},
  title     = {{KymoRod}: a method for automated kinematic analysis of rod-shaped plant organs},
  journal   = {The Plant Journal},
  year      = {2016},
  volume    = {88},
  number    = {3},
  pages     = {468--475},
  month     = {11},
  issn      = {1365-313X},
  doi       = {10.1111/tpj.13255},
  file      = {Bastien_2016_pj.pdf:Bastien_2016_pj.pdf:PDF},
  groups    = {dlegland},
  keywords  = {kinematics, image analysis, hypocotyl, root, elongation growth, mechano-sensing, cellulose synthesis inhibitor, Arabidopsis thaliana, technical advance},
  timestamp = {2016.11.29},
  url       = {http://dx.doi.org/10.1111/tpj.13255},
}

@Article{Legland_2014_plosONE,
  author    = {Legland, David and Devaux, Marie-Fran\c{c}oise and Guillon, Fabienne},
  title     = {{Statistical Mapping of Maize Bundle Intensity at the Stem Scale Using Spatial Normalisation of Replicated Images}},
  journal   = {{PLoS ONE}},
  year      = {2014},
  volume    = {9},
  number    = {3},
  pages     = {e90673},
  month     = {03},
  abstract  = {<p>The cellular structure of plant tissues is a key parameter for determining their properties. While the morphology of cells can easily be described, few studies focus on the spatial distribution of different types of tissues within an organ. As plants have various shapes and sizes, the integration of several individuals for statistical analysis of tissues distribution is a difficult problem. The aim of this study is to propose a method that quantifies the average spatial organisation of vascular bundles within maize stems, by integrating information from replicated images. In order to compare observations made on stems of different sizes and shapes, a spatial normalisation strategy was used. A model of average stem contour was computed from the digitisation of several stem slab images. Point patterns obtained from individual stem slices were projected onto the average stem to normalise them. Group-wise analysis of the spatial distribution of vascular bundles was applied on normalised data through the construction of average intensity maps. A quantitative description of average bundle organisation was obtained, via a 3D model of bundle distribution within a typical maize internode. The proposed method is generic and could easily be extended to other plant organs or organisms.</p>},
  doi       = {10.1371/journal.pone.0090673},
  file      = {Legland2014.pdf:Legland2014.pdf:PDF},
  groups    = {Normalisation Spatiale, Stat. Mapping, dlegland, maize-grass},
  owner     = {David Legland},
  publisher = {Public Library of Science},
  timestamp = {2014.03.13},
  url       = {http://dx.doi.org/10.1371%2Fjournal.pone.0090673},
}

@Article{Legland_2020_PlantMethods,
  author    = {Legland, David and Guillon, Fabienne and Devaux, Marie-Françoise},
  title     = {Parametric mapping of cellular morphology in plant tissue sections by gray level granulometry},
  journal   = {Plant Methods},
  year      = {2020},
  volume    = {16},
  number    = {1},
  pages     = {63},
  issn      = {1746-4811},
  abstract  = {The cellular morphology of plant organs is strongly related to other physical properties such as shape, size, growth, mechanical properties or chemical composition. Cell morphology often vary depending on the type of tissue, or on the distance to a specific tissue. A common challenge in quantitative plant histology is to quantify not only the cellular morphology, but also its variations within the image or the organ. Image texture analysis is a fundamental tool in many areas of image analysis, that was proven efficient for plant histology, but at the scale of the whole image.},
  file      = {:Legland_2020_PlantMethods.pdf:PDF},
  groups    = {dlegland, Granulometry},
  owner     = {dlegland},
  refid     = {Legland2020},
  timestamp = {2020.05.07},
  url       = {https://doi.org/10.1186/s13007-020-00603-7},
}

@Article{Legland_2007_IAS,
  author    = {Legland, David and Kiêu, Kiên and Devaux, Marie-Françoise},
  title     = {{Computation of Minkowski measures on {2D} and {3D} binary images}},
  journal   = {Image Analysis and Stereology},
  year      = {2007},
  volume    = {26},
  number    = {6},
  pages     = {83--92},
  month     = {June},
  doi       = {10.5566/ias.v26.p83-92},
  file      = {Legland2007.pdf:Legland2007.pdf:PDF},
  groups    = {dlegland},
  owner     = {legland},
  timestamp = {2007.09.20},
  url       = {http://www.ias-iss.org/ojs/IAS/article/view/811},
}

@Article{Legland_2012_JMicroscopy,
  author    = {Legland, David and Devaux, M.-F. and Bouchet, B. and Guillon, F. and Lahaye, M.},
  title     = {Cartography of cell morphology in tomato pericarp at the fruit scale},
  journal   = {Journal of Microscopy},
  year      = {2012},
  volume    = {247},
  number    = {1},
  pages     = {78--93},
  doi       = {10.1111/j.1365-2818.2012.03623.x},
  file      = {Legland2012.pdf:Legland2012.pdf:PDF},
  groups    = {Normalisation Spatiale, Stat. Mapping, Plant modeling, dlegland},
  keywords  = {Cell morphology, cell shape, cell size, 3D confocal microscopy, fleshy fruit, grey level granulometry, macroscopy imaging, stereology},
  owner     = {David Legland},
  timestamp = {2012.05.14},
  url       = {http://dx.doi.org/10.1111/j.1365-2818.2012.03623.x},
}

@Article{Aurenhammer_1991_ACM,
  author    = {Aurenhammer, Franz},
  title     = {Voronoi diagram - a study of a fondamental geometric data structure},
  journal   = {ACM Computing surveys},
  year      = {1991},
  volume    = {23},
  number    = {3},
  pages     = {345--405},
  month     = {Sep},
  abstract  = {This paper presents a survey of the Voronoi diagram, one of the most fundamental data
structures in computational geometry. It demonstrates the importance and usefulness
of the Voronoi diagram in a wide variety of fields inside and outside computer science
and surveys the history of its development. The paper puts particular emphasis on the
unified exposition of its mathematical and algorithmic properties. Finally, the paper
provides the first comprehensive bibliography on Voronoi diagrams and related
structures.},
  file      = {Aurenhammer1991.pdf:Aurenhammer1991.pdf:PDF},
  groups    = {Geometric Computing, Voronoi},
  owner     = {legland},
  timestamp = {2007.04.03},
  url       = {http://portal.acm.org/citation.cfm?doid=116873.116880},
}

@Misc{Chen_1996,
  author       = {Chen, Jianer},
  title        = {Computational Geometry: Methods and Applications},
  howpublished = {URL: \path|http://www.cs.tamu.edu/faculty/chen/notes/geo.ps|},
  year         = {1996},
  file         = {Chen1996.pdf:Chen1996.pdf:PDF},
  groups       = {Geometric Computing},
  timestamp    = {2000.00.00},
}

@Book{ORourke_1998,
  title     = {{Computational Geometry in C}},
  publisher = {Cambridge University Press},
  year      = {1998},
  author    = {O'Rourke, Joseph},
  edition   = {Second Edition},
  groups    = {Geometric Computing},
  timestamp = {2000.00.00},
}

@Article{Shewchuk1997,
  author    = {Shewchuk, Jonathan Richard},
  title     = {{Adaptive Precision Floating-Point Arithmetic and Fast Robust Geometric Predicates}},
  journal   = {Discrete and Computational Geometry},
  year      = {1997},
  volume    = {18},
  pages     = {305-363},
  note      = {Also Technical Report CMU-CS-96-140, School of Computer Science, Carnegie Mellon University, Pittsburgh, Pennsylvania},
  file      = {Shewchuk1997.ps:Shewchuk1997.ps:PostScript},
  groups    = {Geometric Computing},
  owner     = {legland},
  timestamp = {2007.09.25},
  url       = {http://www.cs.cmu.edu/~quake/robust.html},
}

@Article{Ogniewicz_1995_PatRec,
  author    = {Ogniewicz, R. L. and K\"ubler, O.},
  title     = {{Hierarchic Voronoi Skeletons}},
  journal   = {Pattern Recognition},
  year      = {1995},
  volume    = {28},
  number    = {3},
  pages     = {343 - 359},
  doi       = {10.1016/0031-3203(94)00105-U},
  file      = {Ogniewicz1995.pdf:Ogniewicz1995.pdf:PDF},
  groups    = {Shape analysis, distance transform, Skeleton, Voronoi},
  keywords  = {Distance transform},
  owner     = {David Legland},
  timestamp = {2012.10.09},
  url       = {http://www.sciencedirect.com/science/article/pii/003132039400105U},
}

@Article{Douglas_Peucker_1973,
  author    = {Douglas and Peucker},
  title     = {Algorithms for the reduction of the number of points required to represent a digitized line or its caricature},
  journal   = {The Canadian Cartographer},
  year      = {1973},
  volume    = {10},
  number    = {2},
  pages     = {112--122},
  doi       = {10.1002/9780470669488.ch2},
  owner     = {David Legland},
  timestamp = {2013.08.07},
  url       = {http://onlinelibrary.wiley.com/doi/10.1002/9780470669488.ch2/summary},
}

@Article{Du1999,
  author    = {Du, Qiang and Faber, Vance and Gunzburger, Max},
  title     = {Centroidal Voronoi Tessellations: Applications and Algorithms},
  journal   = {SIAM Review},
  year      = {1999},
  volume    = {41},
  number    = {4},
  pages     = {637--676},
  file      = {Du1999.pdf:Du1999.pdf:PDF},
  groups    = {Voronoi},
  owner     = {legland},
  timestamp = {2022.02.21},
}

@Article{Fitzgibbon_1999_PAMI,
  author       = {Fitzgibbon, A. W. and Pilu, M. and Fisher, R. B.},
  journal      = {IEEE Transactions on Pattern Analysis and Machine Intelligence},
  title        = {Direct least-squares fitting of ellipses},
  year         = {1999},
  month        = may,
  number       = {5},
  pages        = {476--480},
  volume       = {21},
  creationdate = {2022-09-09T16:14:23},
  timestamp    = {2000.00.00},
}

@Article{Besl_1992_PAMI,
  author       = {Besl, Paul J. and McKay, Neil D.},
  journal      = {IEEE Trans. Pattern Anal. Mach. Intell.},
  title        = {{A Method for Registration of 3-D Shapes}},
  year         = {1992},
  month        = {feb.},
  number       = {2},
  pages        = {239--256},
  volume       = {14},
  creationdate = {2023-07-19T09:11:33},
  doi          = {10.1109/34.121791},
  file         = {:Besl_1992_PAMI.pdf:PDF},
  groups       = {Normalisation Spatiale, Registration-Fusion},
  keywords     = {3D shape registration, computational geometry, convergence, convergence of numerical methods, geometric entity, geometric model, iterative closest point, iterative methods, mean-square distance metric, optimisation, pattern recognition, picture processing, point set registration},
  owner        = {dlegland},
  timestamp    = {2015.08.24},
  url          = {http://dx.doi.org/10.1109/34.121791},
}

@Article{Fuchs_1977_GIP,
  author       = {Fuchs, H. and Kedem, Z. M. and Uselton, S. P.},
  journal      = {ACM Graphics and Image Processing},
  title        = {Optimal surface reconstruction from planar contours},
  year         = {1977},
  issn         = {0001-0782},
  month        = {oct},
  number       = {10},
  pages        = {693--702},
  volume       = {20},
  address      = {New York, NY, USA},
  creationdate = {2023-07-19T13:28:47},
  doi          = {10.1145/359842.359846},
  file         = {:Fuchs_1977_GIP.pdf:PDF},
  issue_date   = {Oct. 1977},
  keywords     = {serial sections, surface reconstruction, minimum cost paths, three-dimensional computer graphics, contour data, continuous tone displays},
  numpages     = {10},
  publisher    = {Association for Computing Machinery},
  timestamp    = {2022.02.01},
  url          = {https://doi.org/10.1145/359842.359846},
}

@Misc{Slabaugh_1999,
  author       = {Slabaugh, Greg},
  month        = aug,
  title        = {{Computing Euler Angles from a Rotation Matrix}},
  year         = {1999},
  creationdate = {2023-07-19T13:32:38},
  file         = {:Slabaugh_1999.pdf:PDF},
  owner        = {dlegland},
  timestamp    = {2019.07.18},
  url          = {http://gregslabaugh.net/publications/euler.pdf},
}

@Misc{Eberly_1999,
  author       = {Eberly},
  title        = {Distance between point and triangle in {3D}},
  year         = {1999},
  creationdate = {2023-07-19T13:39:47},
  url          = {https://www.geometrictools.com/Documentation/DistancePoint3Triangle3.pdf},
}

@Misc{gptoolbox,
  author       = {Alec Jacobson and others},
  note         = {{\footnotesize \url{http://github.com/alecjacobson/gptoolbox}}},
  title        = {{gptoolbox}: {Geometry Processing Toolbox}},
  year         = {2021},
  creationdate = {2023-12-20T10:35:07},
}

@Misc{Peyre_2024,
  author       = {Gabriel Peyre},
  howpublished = {MATLAB Central File Exchange.},
  note         = {{\footnotesize \url{https://www.mathworks.com/matlabcentral/fileexchange/5355-toolbox-graph}}, retrieved February 20, 2024.},
  title        = {{Toolbox Graph}},
  year         = {2024},
  creationdate = {2024-02-20T17:38:39},
  url          = {https://www.mathworks.com/matlabcentral/fileexchange/5355-toolbox-graph},
}

@Book{Bieri_1991,
  author       = {Bieri, H. and Noltemeier, H.},
  editor       = {Goos, G. and Hartmanis, J.},
  publisher    = {Springer-Verlag},
  title        = {{Computational Geometry - Methods, Algorithms and Applications}},
  year         = {1991},
  creationdate = {2024-07-15T14:12:48},
  groups       = {Geometric Computing},
  timestamp    = {2000.00.00},
}

@Book{DeBerg_2000,
  author       = {de Berg, M. and van Kreveld, M. and Overmars, M. and Schwarzkopf, O.},
  publisher    = {Springer},
  title        = {Computational Geometry, Algorithms and Applications},
  year         = {2000},
  edition      = {second},
  creationdate = {2024-07-15T14:13:05},
  groups       = {Geometric Computing},
  timestamp    = {2000.00.00},
}

@Book{Botsch_2010,
  author       = {Botsch, Mario and Kobbelt, Leif and Pauly, Mark and Alliez, Pierre and L\'evy, Bruno},
  publisher    = {CRC Press},
  title        = {{Polygon Mesh Processing}},
  year         = {2010},
  creationdate = {2024-07-16T17:54:13},
  url          = {https://www.pmp-book.org/},
}

@Comment{jabref-meta: databaseType:bibtex;}
