Publications


37 documents

Journal articles11 documents

  • Anuradha Kar, Manuel Petit, Yassin Refahi, Guillaume Cerutti, Christophe Godin, et al.. Benchmarking of deep learning algorithms for 3D instance segmentation of confocal image datasets. PLoS Computational Biology, 2022, 18 (4), pp.e1009879. ⟨10.1371/journal.pcbi.1009879⟩. ⟨hal-03659219⟩
  • Eliana Mor, Markéta Pernisová, Max Minne, Guillaume Cerutti, Dagmar Ripper, et al.. bHLH heterodimer complex variations regulate cell proliferation activity in the meristems of Arabidopsis thaliana. iScience, 2022, 25 (11), pp.105364. ⟨10.1016/j.isci.2022.105364⟩. ⟨hal-03853788⟩
  • Carlos Galvan-Ampudia, Guillaume Cerutti, Jonathan Legrand, Geraldine Brunoud, Raquel Martin Arevalillo, et al.. Temporal integration of auxin information for the regulation of patterning. eLife, 2020, 9, ⟨10.7554/eLife.55832⟩. ⟨hal-02368529⟩
  • Romain Azaïs, Guillaume Cerutti, Didier Gemmerlé, Florian Ingels. Treex : a Python package for manipulating rooted trees. Journal of Open Source Software, 2019, 4 (38), pp.1-2. ⟨10.21105/joss.01351⟩. ⟨hal-02164364⟩
  • Stéphane Verger, Guillaume Cerutti, Olivier Hamant. An image analysis pipeline to quantify emerging cracks in materials or adhesion defects in living tissues. Bio-protocol , 2018, 8 (19), pp.1-16. ⟨10.21769/BioProtoc.3036⟩. ⟨hal-02171434⟩
  • Stéphane Verger, Guillaume Cerutti, Olivier Hamant. An Image Analysis Pipeline to Quantify Emerging Cracks in Materials or Adhesion Defects in Living Tissues. Bio-protocol , 2018, 8 (19). ⟨hal-01940178⟩
  • Sarah Bertrand, Rihab Ben Ameur, Guillaume Cerutti, Didier Coquin, Lionel Valet, et al.. Bark and Leaf Fusion Systems to Improve Automatic Tree Species Recognition. Ecological Informatics, 2018, ⟨10.1016/j.ecoinf.2018.05.007⟩. ⟨hal-01811039⟩
  • Guillaume Cerutti, Olivier Ali, Christophe Godin. DRACO-STEM: An Automatic Tool to Generate High-Quality 3D Meshes of Shoot Apical Meristem Tissue at Cell Resolution. Frontiers in Plant Science, 2017, 8, pp.353. ⟨10.3389/fpls.2017.00353⟩. ⟨hal-01573521⟩
  • Manuel Grand-Brochier, Antoine Vacavant, Guillaume Cerutti, Camille Kurtz, Jonathan Weber, et al.. Tree leaves extraction in natural images: Comparative study of pre-processing tools and segmentation methods. IEEE Transactions on Image Processing, 2015, 24 (5), pp.1549-1560. ⟨10.1109/TIP.2015.2400214⟩. ⟨hal-01176699⟩
  • Guillaume Cerutti, Laure Tougne, Didier Coquin, Antoine Vacavant. Leaf margins as sequences: A structural approach to leaf identification. Pattern Recognition Letters, 2014, 49 (2014), pp.177-184. ⟨10.1016/j.patrec.2014.07.016⟩. ⟨hal-01095539⟩
  • Guillaume Cerutti, Laure Tougne, Julien Mille, Antoine Vacavant, Didier Coquin. Understanding Leaves in Natural Images - A Model-Based Approach for Tree Species Identification. Computer Vision and Image Understanding, 2013, 117 (10), pp.1482-1501. ⟨10.1016/j.cviu.2013.07.003⟩. ⟨hal-00872878⟩

Conference papers17 documents

  • Manuel Petit, Guillaume Cerutti, Christophe Godin, Grégoire Malandain. Robust Plant Cell Tracking in Fluorescence Microscopy 3D+T Series. ISBI 2022 - IEEE 19th International Symposium on Biomedical Imaging, Mar 2022, Kolkata, India. pp.1-4, ⟨10.1109/ISBI52829.2022.9761521⟩. ⟨hal-03683119⟩
  • Félix Hartmann, Christophe Godin, Guillaume Cerutti, Bruno Moulia, Eric Badel. Projet de modèle cellulaire 3D de cambium pour étudier l'influence du stress mécanique. Xylogénèse sous contraintes environnementales multiples, GDR Sciences du bois; INRAE, Jul 2022, Nancy, France. ⟨hal-03782696⟩
  • Guillaume Cerutti, Carlos Galvan Ampudia, Jonathan Legrand, Christophe Godin, Teva Vernoux. Quantifying cell polarities in confocal images using 3D wall meshes. IAMPS 2019 - 7th International Workshop on Image Analysis Methods in the Plant Sciences, Jul 2019, Bron, France. pp.1-2. ⟨hal-02176398⟩
  • Sarah Bertrand, Guillaume Cerutti, Laure Tougne. Segmentation Algorithm on Smartphone Dual Camera: Application to Plant Organs in the Wild. 10th International Conference on Machine Vision, Nov 2017, Vienna, Austria. ⟨10.1117/12.2314731⟩. ⟨hal-01675655⟩
  • Sarah Bertrand, Guillaume Cerutti, Laure Tougne. Bark Recognition to Improve Leaf-based Classification in Didactic Tree Species Identification. VISAPP 2017 - 12th International Conference on Computer Vision Theory and Applications, Feb 2017, Porto, Portugal. ⟨hal-01486591⟩
  • Guillaume Cerutti, Christophe Godin. Meshing Meristems - An Iterative Mesh Optimization Method for Modeling Plant Tissue at Cell Resolution. BIOIMAGING, Jan 2015, Lisbonne, Portugal. ⟨hal-01100808⟩
  • Guillaume Cerutti, Sophie Ribes, Christophe Godin, Carlos Galvan Ampudia, Teva Vernoux. 3D Tessellation of Plant Tissue A dual optimization approach to cell-level meristem reconstruction from microscopy images. International Conference on 3D Vision, Oct 2015, Lyon, France. pp.9, ⟨10.1109/3DV.2015.57⟩. ⟨hal-01246580⟩
  • Manuel Grand-Brochier, Antoine Vacavant, Robin Strand, Guillaume Cerutti, Laure Tougne. About the Impact of Pre-processing Tools on Segmentation Methods, Applied for Tree Leaves Extraction. 9th International Conference on Computer Vision Theory and Applications (VISAPP), Jan 2014, Lisbon, Portugal. pp.1-10. ⟨hal-01270783⟩
  • Honghui Liu, Didier Coquin, Lionel Valet, Guillaume Cerutti. Leaf Species Classification Based on a Botanical Shape Sub-Classifier Strategy. 22nd International Conference on Pattern Recognition, Aug 2014, Stockholm, Sweden. pp.1496-1501, ⟨10.1109/ICPR.2014.266⟩. ⟨hal-01062725⟩
  • Guillaume Cerutti, Laure Tougne, Didier Coquin, Antoine Vacavant. Curvature-Scale-based Contour Understanding for Leaf Margin Shape Recognition and Species Identification. International Conference on Computer Vision Theory and Applications (VISAPP), Feb 2013, Barcelona, Spain. pp.277-284. ⟨hal-00872870⟩
  • Guillaume Cerutti, Laure Tougne, Céline Sacca, Thierry Joliveau, Pierre-Olivier Mazagol, et al.. Late Information Fusion for Multi-modality Plant Species Identification. Conference and Labs of the Evaluation Forum, Sep 2013, Valencia, Spain. pp.Working Notes. ⟨hal-00872903⟩
  • Guillaume Cerutti, Laure Tougne, Julien Mille, Antoine Vacavant, Didier Coquin. A Model-Based Approach for Compound Leaves Understanding and Identification. International Conference on Image Processing (ICIP), Sep 2013, Melbourne, Australia. pp.1471-1475. ⟨hal-00872889⟩
  • Manuel Grand-Brochier, Antoine Vacavant, Guillaume Cerutti, Kevin Bianchi, Laure Tougne. Comparative Study of Segmentation Methods for Tree Leaves Extraction. ACM ICVS, Workshop VIGTA (International Workshop on Video and Image Ground Truth in computer vision Applications), Jul 2013, St Petersbourg, Russia. pp.1-10, ⟨10.1145/2501105.2501109⟩. ⟨hal-01339221⟩
  • Laure Tougne, Guillaume Cerutti, Antoine Vacavant, Julien Mille, Violaine Antoine, et al.. Projet ReVeS : Reconnaissance de Végétaux pour de interfaces Smartphones. 8èmes journées francophones Mobilité et Ubiquité (UBIMOB), Jun 2012, Anglet, France. pp.49-54. ⟨hal-00760026⟩
  • Guillaume Cerutti, Violaine Antoine, Laure Tougne, Julien Mille, Lionel Valet, et al.. ReVeS Participation - Tree Species Classification using Random Forests and Botanical Features. Conference and Labs of the Evaluation Forum (CLEF), Sep 2012, Rome, Italy. pp.1. ⟨hal-00759848⟩
  • Guillaume Cerutti, Laure Tougne, Julien Mille, Antoine Vacavant, Didier Coquin. Guiding Active Contours for Tree Leaf Segmentation and Identification. CLEF 2011, Conference on Multilingual and Multimodal Information Access Evaluation, Sep 2011, Amsterdam, Netherlands. pp.1. ⟨hal-00622274⟩
  • Guillaume Cerutti, Laure Tougne, Antoine Vacavant, Didier Coquin. A Parametric Active Polygon for Leaf Segmentation and Shape Estimation. 7th International Symposium on Visual Computing, Sep 2011, Las Vegas, United States. pp.202-213. ⟨hal-00622269⟩

Poster communications4 documents

  • Anthony Scriven, Carlos Galvan-Ampudia, Guillaume Cerutti. Can U-Net replace CLV3? Machine learning for the identification of biological landmarks in Shoot Apical Meristem images. From genes to plant architecture: the shoot apical meristem in all its states, Nov 2022, Poitiers, France. ⟨hal-03892383⟩
  • Landry Duguet, Guillaume Cerutti, Carlos Galvan-Ampudia, Etienne Farcot, Teva Vernoux, et al.. Revisiting PIN1 polarity interpretation at the SAM based on automated multi-level reconstruction of PIN1 polarities from confocal images. From genes to plant architecture: the shoot apical meristem in all its states, Nov 2022, Poitiers, France. ⟨hal-03896961⟩
  • Sarah Bertrand, Guillaume Cerutti, Laure Tougne. Visualization of Leaf Botanical Features Extracted from AlexNet Convolutional Layers. IAMPS - International Workshop on Image Analysis Methods for the Plant Sciences 2018, Jan 2018, Nottingham, United Kingdom. ⟨hal-01691924⟩
  • Guillaume Cerutti, Carlos Galvan-Ampudia, Jonathan Legrand, Teva Vernoux, Christophe Godin. A parametric active 4D model for the automatic construction of developmental atlases from confocal images of shoot apical meristems. IAMPS - International Workshop on Image Analysis Methods for the Plant Sciences 2018, Jan 2018, Nottingham, United Kingdom. 2018. ⟨hal-01692584⟩

Preprints, Working Papers, ...4 documents

  • Juan Alonso-Serra, Ibrahim Cheddadi, Annamaria Kiss, Guillaume Cerutti, Claire Lionnet, et al.. Water fluxes contribute to growth patterning in shoot meristems. 2023. ⟨hal-04254674⟩
  • Teva Vernoux, Bihai Shi, Amelia Felipo-Benavent, Guillaume Cerutti, Carlos Galvan-Ampudia, et al.. A quantitative gibberellin signalling biosensor reveals a role for gibberellins in internode specification at the shoot apical meristem. 2021. ⟨hal-03393660⟩
  • Carlos Galvan-Ampudia, Guillaume Cerutti, Jonathan Legrand, Romain Azaïs, Geraldine Brunoud, et al.. From spatio-temporal morphogenetic gradients to rhythmic patterning at the shoot apex. 2018. ⟨hal-01937928⟩
  • Guillaume Cerutti. Segmentation et interprétation d'images naturelles pour l'identification de feuilles d'arbres sur smartphone. 2013. ⟨hal-01461461⟩

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