3D Multimodal Simulation of Image Acquisition by X-Ray and MRI for Validation of Seedling Measurements with Segmentation Algorithms

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• 作者：Landry Benoit (16)
  Georges Semaan (16)
  Florence Franconi (17)
  脡tienne Belin (16)
  Fran莽ois Chapeau-Blondeau (16)
  Didier Demilly (18)
  David Rousseau (19)
  
  16. Laboratoire Angevin de Recherche en Ing茅nierie des Syst猫mes (LARIS) ; Universit茅 d鈥橝ngers ; 62 avenue Notre Dame du Lac ; 49000 ; Angers ; France
  17. Plateforme d鈥橧ng茅nierie et d鈥橝nalyse Mol茅culaire (PIAM) ; Universit茅 d鈥橝ngers ; Angers ; France
  18. GEVES ; Station Nationale d鈥橢ssais de Semences (SNES) ; rue Georges Morel ; 49071 ; Beaucouz茅 ; France
  19. Universit茅 de Lyon ; Laboratoire CREATIS ; CNRS ; UMR5220 ; INSERM ; U1044 ; Universit茅 Lyon 1 ; INSA-Lyon ; 69621 ; Villeurbanne ; France
  
• 关键词：Seedling monitoring ; X ; Ray ; MRI ; 3D simulation
• 刊名：Lecture Notes in Computer Science
• 出版年：2015
• 出版时间：2015
• 年：2015
• 卷：8928
• 期：1
• 页码：131-139
• 全文大小：1,446 KB
• 参考文献：1. Mairhofer, S, Zappala, S, Tracy, S, Sturrock, C, Bennett, M, Mooney, S, Pridemore, T (2012) Rootrak: automated recovery of 3D plant root architecture in soil with X-Ray micro computed tomography using visual tracking. Plant Physiology 158: pp. 561-569 dx.doi.org/10.1104/pp.111.186221" target="_blank" title="It opens in new window">CrossRef
  2. Zappala, S., Mairhofer, S., Tracy, S., Sturrock, C., Bennett, M., Pridemore, T., Mooney, S.: Quantifying the effect of soil moisture content on segmenting root system architecture in X-Ray micro-Computed Tomography. Plant and Soil (2013)
  3. Mairhofer, S., Zappala, S., Sturrock, C., Bennett, M., Mooney, S., Pridemore, T. Recovering complete plant root system architectures from soil via X-Ray Micro-Computed Tomography. Plant Physiology 359 (2013)
  4. Schultz, H, Postma, J, Dusschoten, D, Scharr, H, Behnke, S (2013) Plant root system from MRI images. Computer Vision, Imaging and Computer Graphics 359: pp. 411-425
  5. Glatard, T, Lartizien, C, Gibaud, B (2013) Ferreira da Silva, G., Cervenansky, F., Alessandrini, M., Benoit Cattin, H., Bernard, O., Camarasu Pop, S.: A virtual imaging platform for multi-modality medical image simulation. IEEE Transactions on Medical Imaging 32: pp. 110-118 dx.doi.org/10.1109/TMI.2012.2220154" target="_blank" title="It opens in new window">CrossRef
  6. Benoit, L., Rousseau, D., Belin, E., Demilly, D., Chapeau-Blondeau, F.: Simulation of image acquisition in machine vision dedicated to seedling elongation to validate image processing root segmentation algorithms. Computers and Electronics in Agriculture 104, 84鈥?2 (2014)
  7. Popova, L, Russino, A, Ascrizzi, A, Mazzolai, B (2012) Analysis of movement in primary maize roots. Biologia 67: pp. 517-524 dx.doi.org/10.2478/s11756-012-0023-z" target="_blank" title="It opens in new window">CrossRef
  8. Leitner, D, Klepsch, S, Bodner, G, Schnepf, A (2010) A dynamic root system growth model based on L-systems. Plant Soil 332: pp. 177-192 dx.doi.org/10.1007/s11104-010-0284-7" target="_blank" title="It opens in new window">CrossRef
  9. ngers.fr/PHENOTIC/telechargements.html" class="a-plus-plus">http://lisabiblio.univ-angers.fr/PHENOTIC/telechargements.html
  10. Jahnke, S, Menzel, MI, Dusschoten, D, Roeb, GW, B眉hler, J, Minwuyelet, S, Bl眉mler, P, Temperton, VM, Hombach, T, Streun, M, Beer, S, Khodaverdi, M, Ziemons, K, Coenen, HH, Schurr, U (2009) Combined MRI-PET dissects dynamic changes in plant structures and functions. Plant Journal 59: pp. 634-644 dx.doi.org/10.1111/j.1365-313X.2009.03888.x" target="_blank" title="It opens in new window">CrossRef
  
• 作者单位：Computer Vision - ECCV 2014 Workshops
• 丛书名：978-3-319-16219-5
• 刊物类别：Computer Science
• 刊物主题：Artificial Intelligence and Robotics
  Computer Communication Networks
  Software Engineering
  Data Encryption
  Database Management
  Computation by Abstract Devices
  Algorithm Analysis and Problem Complexity
  
• 出版者：Springer Berlin / Heidelberg
• ISSN：1611-3349

文摘

In this report, we present a 3D simulator for the numerical validation of segmentation algorithms for seedling in soil from X-ray or MRI. A 3D simulator of root in elongation is coupled to a simulator of the image acquisition to generate images of simulated seedling associated with a known synthetic ground truth. We detail how acquisition parameters of the seedling and parameters of the imaging systems are estimated and combined to produce realistic images. The resulting simulator is available on line to open the possibility of segmentation challenges with in silico validation based on unlimited number of seedling.