Computational Vegetation Lab at Purdue- Publications

Computational Vegetation Lab at Purdue - Publications

2026

Pauli, D., Huppenthal, B., Wang, D., Schnable, J., & Benes, B. (2026). Digital twins for plant and crop improvement. Trends in Plant Science. https://doi.org/10.1016/j.tplants.2026.06.005
```
@article{PAULI2026,
  title = {Digital twins for plant and crop improvement},
  journal = {Trends in Plant Science},
  year = {2026},
  issn = {1360-1385},
  doi = {10.1016/j.tplants.2026.06.005},
  author = {Pauli, Duke and Huppenthal, Brennan and Wang, Diane and Schnable, James and Benes, Bedrich},
  owner = {Pauli26TPS.jpg},
  pdf = {../papers/Pauli26TPS.pdf}
}
```

Yang, Z., Schwarz, N., Li, B., Michels, D., Benes, B., Pirk, S., & Palubicki, W. (2026). Woodstock: Interactive Modeling of Fungal Wood Decay. ACM Trans. Graph., 45(4). https://doi.org/10.1145/3811376

@article{Yang26ToG,
  author = {Yang, Zhanyu and Schwarz, Nikolas and Li, Bosheng and Michels, Dominik and Benes, Bedrich and Pirk, S\"{o}ren and Palubicki, Wojtek},
  title = {Woodstock: Interactive Modeling of Fungal Wood Decay},
  year = {2026},
  issue_date = {July 2026},
  publisher = {Association for Computing Machinery},
  address = {New York, NY, USA},
  volume = {45},
  number = {4},
  issn = {0730-0301},
  doi = {10.1145/3811376},
  journal = {ACM Trans. Graph.},
  month = jul,
  articleno = {155},
  numpages = {17},
  owner = {Yang26ToG.jpg},
  pdf = {../papers/Yang26ToG.pdf}
}

Vazquez, J., Yang, S., Zhang, Y., Demieville, J., Huppenthal, B., Merchant, N., Popescu, V., Magana, A., Pauli, D., & Benes, B. (2026). VR BioTalk—Hands-Free Visual Analytics of Phenotyping Data Using Natural Conversation. IEEE Access, 14, 75577–75592. https://doi.org/10.1109/ACCESS.2026.3692426

@article{Vazquez26Access,
  author = {Vazquez, Jorge and Yang, Shuwen and Zhang, Yiqun and Demieville, Jeffrey and Huppenthal, Brennan and Merchant, Nirav and Popescu, Voicu and Magana, Alejandra and Pauli, Duke and Benes, Bedrich},
  journal = {IEEE Access},
  title = {VR BioTalk—Hands-Free Visual Analytics of Phenotyping Data Using Natural Conversation},
  year = {2026},
  volume = {14},
  number = {},
  pages = {75577-75592},
  doi = {10.1109/ACCESS.2026.3692426},
  owner = {Vazquez26Access.jpg},
  pdf = {../papers/Vazquez26Access.pdf}
}

Lee, J. J., & Benes, B. (2026). A-Occ-Plant: Plant occluded point cloud completion via amodal segmentation. Plant Phenomics, 8(3), 100240. https://doi.org/10.1016/j.plaphe.2026.100240
```
@article{LEE2026100240,
  author = {Lee, Jae Joong and Benes, Bedrich},
  title = {A-Occ-Plant: Plant occluded point cloud completion via amodal segmentation},
  journal = {Plant Phenomics},
  volume = {8},
  number = {3},
  pages = {100240},
  year = {2026},
  issn = {2643-6515},
  doi = {10.1016/j.plaphe.2026.100240},
  owner = {Lee26PlantPhenomics.jpg},
  pdf = {../papers/Lee26PlantPhenomics.pdf}
}
```

Hadadi, M., Jubery, T. Z., Schnable, P. S., Singh, A., Benes, B., Krishnamurthy, A., & Ganapathysubramanian, B. (2026). FloraForge: Procedural generation of editable and analysis-ready 3D plant geometric models using LLM-assisted template design. Smart Agricultural Technology, 14, 102316. https://doi.org/10.1016/j.atech.2026.102316

@article{Hadadi26SmartAg,
  author = {Hadadi, Mozhgan and Jubery, Talukder Z. and Schnable, Patrick S. and Singh, Arti and Benes, Bedrich and Krishnamurthy, Adarsh and Ganapathysubramanian, Baskar},
  title = {FloraForge: Procedural generation of editable and analysis-ready 3D plant geometric models using LLM-assisted template design},
  journal = {Smart Agricultural Technology},
  volume = {14},
  pages = {102316},
  year = {2026},
  issn = {2772-3755},
  doi = {10.1016/j.atech.2026.102316},
  owner = {Hadadi26SmartAg.jpg},
  pdf = {../papers/Hadadi26SmartAg.pdf}
}

Firoze, A., Uppala, A., Darling, L., Yeh, R. A., Benes, B., Hardiman, B., Fei, S., & Aliaga, D. (2026). Where Are the City Trees? Monitoring Urban Trees across the U.S. Using Generative AI. Communications of the ACM, 69(4), 50–59. https://doi.org/10.1145/3762636

@article{Firoze26CACM,
  author = {Firoze, Adnan and Uppala, Akshaj and Darling, Lindsay and Yeh, Raymond A. and Benes, Bedrich and Hardiman, Brady and Fei, Songlin and Aliaga, Daniel},
  title = {Where Are the City Trees? Monitoring Urban Trees across the U.S. Using Generative AI},
  year = {2026},
  issue_date = {April 2026},
  publisher = {Association for Computing Machinery},
  address = {New York, NY, USA},
  volume = {69},
  number = {4},
  issn = {0001-0782},
  doi = {10.1145/3762636},
  journal = {Communications of the ACM},
  month = mar,
  pages = {50–59},
  numpages = {10},
  owner = {Firoze26CACM.jpg},
  pdf = {../papers/Firoze26CACM.pdf}
}

2025

Li, B., Schwarz, N., Palubicki, W., Pirk, S., Michels, D. L., & Benes, B. (2025). Stressful Tree Modeling: Breaking Branches with Strands. Proceedings of the Special Interest Group on Computer Graphics and Interactive Techniques Conference Conference Papers. https://doi.org/10.1145/3721238.3730745

@inproceedings{Li25Sigg,
  author = {Li, Bosheng and Schwarz, Nikolas and Palubicki, Wojtek and Pirk, S\"{o}ren and Michels, Dominik L. and Benes, Bedrich},
  title = {Stressful Tree Modeling: Breaking Branches with Strands},
  year = {2025},
  isbn = {9798400715402},
  publisher = {Association for Computing Machinery},
  address = {New York, NY, USA},
  doi = {10.1145/3721238.3730745},
  booktitle = {Proceedings of the Special Interest Group on Computer Graphics and Interactive Techniques Conference Conference Papers},
  articleno = {157},
  numpages = {11},
  keywords = {Geometric Modeling, Tree Models, Strands, Interaction},
  series = {SIGGRAPH Conference Papers '25},
  owner = {Li25Sigg.jpg},
  pdf = {../papers/Li25Sigg.pdf},
  link = {https://youtu.be/gU9qMphl7yI}
}

Zhou, X., Li, B., Benes, B., Habib, A., Fei, S., Shao, J., & Pirk, S. (2025). TreeStructor: Forest Reconstruction With Neural Ranking. IEEE Transactions on Geoscience and Remote Sensing, 63, 1–19. https://doi.org/10.1109/TGRS.2025.3558312

@article{Zhou25TRGS,
  author = {Zhou, Xiaochen and Li, Bosheng and Benes, Bedrich and Habib, Ayman and Fei, Songlin and Shao, Jinyuan and Pirk, Soeren},
  journal = {IEEE Transactions on Geoscience and Remote Sensing},
  title = {TreeStructor: Forest Reconstruction With Neural Ranking},
  year = {2025},
  volume = {63},
  number = {},
  pages = {1-19},
  doi = {10.1109/TGRS.2025.3558312},
  owner = {Zhou25TRGS.jpg},
  pdf = {../papers/Zhou25TGRS.pdf},
  code = {https://lewkesy.github.io/treestructor/},
  link = {https://www.youtube.com/watch?v=TlsYNfwIYJE}
}

Davis, J. M., Gaillard, M., Tross, M. C., Shrestha, N., Ostermann, I., Grove, R. J., Li, B., Benes, B., & Schnable, J. C. (2025). 3D Reconstruction Enables High-Throughput Phenotyping and Quantitative Genetic Analysis of Phyllotaxy. Plant Phenomics, 7(1), 100023. https://doi.org/https://doi.org/10.1016/j.plaphe.2025.100023

@article{Davis25PlPh,
  author = {Davis, Jensina M. and Gaillard, Mathieu and Tross, Michael C. and Shrestha, Nikee and Ostermann, Ian and Grove, Ryleigh J. and Li, Bosheng and Benes, Bedrich and Schnable, James C.},
  title = {3D Reconstruction Enables High-Throughput Phenotyping and Quantitative Genetic Analysis of Phyllotaxy},
  journal = {Plant Phenomics},
  pages = {100023},
  year = {2025},
  volume = {7},
  number = {1},
  month = mar,
  issn = {2643-6515},
  doi = {https://doi.org/10.1016/j.plaphe.2025.100023},
  owner = {Davis25PlPh.png},
  pdf = {../papers/Davis25PlPh.pdf}
}

Lee, J. J., Li, B., Beery, S., Huang, J., Fei, S., Yeh, R. A., & Benes, B. (2025). Tree-D Fusion: Simulation-Ready Tree Dataset from Single Images with Diffusion Priors. Computer Vision - ECCV 2024, 439–460. https://doi.org/10.1007/978-3-031-72940-9_25

@inproceedings{Lee25ECCV,
  author = {Lee, Jae Joong and Li, Bosheng and Beery, Sara and Huang, Jonathan and Fei, Songlin and Yeh, Raymond A. and Benes, Bedrich},
  title = {Tree-D Fusion: Simulation-Ready Tree Dataset from Single Images with Diffusion Priors},
  booktitle = {Computer Vision - ECCV 2024},
  year = {2025},
  publisher = {Springer Nature Switzerland},
  pages = {439-460},
  doi = {10.1007/978-3-031-72940-9_25},
  code = {https://github.com/JaeLee18/TreeDFusion_ECCV24},
  owner = {Lee25ECCV.jpg},
  pdf = {../papers/Lee25ECCV.pdf}
}

Warner, C., Wu, F., Gazo, R., Benes, B., & Fei, S. (2025). Environmental Sensitivity in AI Tree Bark Detection: Identifying Key Factors for Improving Classification Accuracy. Algorithms, 18(7). https://doi.org/10.3390/a18070417

@article{Warner25Algorithms,
  author = {Warner, Charles and Wu, Fanyou and Gazo, Rado and Benes, Bedrich and Fei, Songlin},
  title = {Environmental Sensitivity in AI Tree Bark Detection: Identifying Key Factors for Improving Classification Accuracy},
  journal = {Algorithms},
  volume = {18},
  year = {2025},
  number = {7},
  article-number = {417},
  issn = {1999-4893},
  doi = {10.3390/a18070417},
  owner = {Warner25Algorithms.jpg},
  pdf = {../papers/Warner25Algorithms.pdf}
}

2024

Li, B., Schwarz, N. A., Pałubicki, W., Pirk, S., & Benes, B. (2024). Interactive Invigoration: Volumetric Modeling of Trees with Strands. ACM Trans. Graph., 43(4). https://doi.org/10.1145/3658206

@article{Li24ToG,
  author = {Li, Bosheng and Schwarz, Nikolas Alexander and Pa\l{}ubicki, Wojtek and Pirk, S\"{o}ren and Benes, Bedrich},
  title = {Interactive Invigoration: Volumetric Modeling of Trees with Strands},
  year = {2024},
  issue_date = {July 2024},
  publisher = {Association for Computing Machinery},
  address = {New York, NY, USA},
  volume = {43},
  number = {4},
  issn = {0730-0301},
  url = {https://doi.org/10.1145/3658206},
  doi = {10.1145/3658206},
  journal = {ACM Trans. Graph.},
  month = jul,
  articleno = {146},
  numpages = {13},
  owner = {Li24ToG.jpg},
  pdf = {../papers/Li24ToG.pdf}
}

Lee, J. J., Li, B., & Benes, B. (2024). Latent L-Systems: Transformer-Based Tree Generator. ACM Trans. Graph., 43(1). https://doi.org/10.1145/3627101

@article{Lee24ToG,
  author = {Lee, Jae Joong and Li, Bosheng and Benes, Bedrich},
  title = {Latent L-Systems: Transformer-Based Tree Generator},
  year = {2024},
  issue_date = {February 2024},
  publisher = {Association for Computing Machinery},
  address = {New York, NY, USA},
  volume = {43},
  number = {1},
  issn = {0730-0301},
  url = {https://doi.org/10.1145/3627101},
  doi = {10.1145/3627101},
  journal = {ACM Trans. Graph.},
  month = feb,
  articleno = {7},
  numpages = {16},
  owner = {Lee24ToG.png},
  pdf = {../papers/Lee24ToG.pdf}
}

Li, Y., Liu, Z., Benes, B., Zhang, X., & Guo, J. (2024). SVDTree: Semantic Voxel Diffusion for Single Image Tree Reconstruction. Proceedings of the IEEE/CVF Conference on Computer Vision and Pattern Recognition (CVPR), 4692–4702.
```
@inproceedings{Li24CVPR,
  author = {Li, Yuan and Liu, Zhihao and Benes, Bedrich and Zhang, Xiaopeng and Guo, Jianwei},
  title = {SVDTree: Semantic Voxel Diffusion for Single Image Tree Reconstruction},
  booktitle = {Proceedings of the IEEE/CVF Conference on Computer Vision and Pattern Recognition (CVPR)},
  month = jun,
  year = {2024},
  pages = {4692-4702},
  owner = {Li24CVPR.jpg},
  pdf = {../papers/Li24CVPR.pdf}
}
```

Tuggle, C. K., Clarke, J. L., Murdoch, B. M., Lyons, E., Scott, N. M., Benes, B., Campbell, J. D., Chung, H., Daigle, C. L., Choudhury, S. D., Dekkers, J. C. M., Dorea, J. R. R., Ertl, D. S., Feldman, M., Fragomeni, B. O., Fulton, J. E., Guadagno, C. R., Hagen, D. E., Hess, A. S., … Schnable, P. S. (2024). Current challenges and future of agricultural genomes to phenomes in the USA. Genome Biology, 25(8). https://doi.org/10.1186/s13059-023-03155-w

@article{Tuggle24GB,
  author = {Tuggle, Christopher K. and Clarke, Jennifer L. and Murdoch, Brenda M. and Lyons, Eric and Scott, Nicole M. and Benes, Bedrich and Campbell, Jacqueline D. and Chung, Henri and Daigle, Courtney L. and Choudhury, Sruti Das and Dekkers, Jack C. M. and Dorea, Joao R. R. and Ertl, David S. and Feldman, Max and Fragomeni, Breno O. and Fulton, Janet E. and Guadagno, Carmela R. and Hagen, Darren E. and Hess, Andrew S. and Kramer, Luke M. and Lawrence-Dill, Carolyn J. and Lipka, Alexander E. and Lubberstedt, Thomas and McCarthy, Fiona M. and McKay, Stephanie D. and Murray, Seth C. and Riggs, Penny K. and Rowan, Troy N. and Sheehan, Moira J. and Steibel, Juan P. and Thompson, Addie M. and Thornton, Kara J. and Tassell, Curtis P. Van and Schnable, Patrick S.},
  title = {Current challenges and future of agricultural genomes to phenomes in the USA},
  year = {2024},
  issue_date = {January 2024},
  publisher = {Springer-Verlag},
  volume = {25},
  number = {8},
  url = {https://doi.org/10.1186/s13059-023-03155-w},
  doi = {10.1186/s13059-023-03155-w},
  journal = {Genome Biology},
  month = jan,
  owner = {Tuggle24GB.png},
  pdf = {../papers/Tuggle24GB.pdf}
}

Zarei, A., Li, B., Schnable, J. C., Lyons, E., Pauli, D., Barnard, K., & Benes, B. (2024). PlantSegNet: 3D point cloud instance segmentation of nearby plant organs with identical semantics. Computers and Electronics in Agriculture, 221, 108922. https://doi.org/https://doi.org/10.1016/j.compag.2024.108922

@article{Zarei24COMPAG,
  title = {PlantSegNet: 3D point cloud instance segmentation of nearby plant organs with identical semantics},
  journal = {Computers and Electronics in Agriculture},
  volume = {221},
  pages = {108922},
  year = {2024},
  issn = {0168-1699},
  doi = {https://doi.org/10.1016/j.compag.2024.108922},
  author = {Zarei, Ariyan and Li, Bosheng and Schnable, James C. and Lyons, Eric and Pauli, Duke and Barnard, Kobus and Benes, Bedrich},
  keywords = {Phenotyping, Digital twins, Point clouds, Procedural modeling, Plant geometry, Sorghum},
  owner = {Zarei24COMPAG.png},
  pdf = {../papers/Zarei24COMPAG.pdf}
}

Ostermann, I., Benes, B., Gaillard, M., Li, B., Davis, J., Grove, R., Shrestha, N., Tross, M. C., & Schnable, J. C. (2024). Sorghum segmentation and leaf counting using in silico trained deep neural model. The Plant Phenome Journal, 7(1), e70002. https://doi.org/https://doi.org/10.1002/ppj2.70002

@article{Ostermann24PlantPhenome,
  title = {Sorghum segmentation and leaf counting using in silico trained deep neural model},
  author = {Ostermann, Ian and Benes, Bedrich and Gaillard, Mathieu and Li, Bosheng and Davis, Jensina and Grove, Ryleigh and Shrestha, Nikee and Tross, Michael C and Schnable, James C},
  journal = {The Plant Phenome Journal},
  volume = {7},
  number = {1},
  pages = {e70002},
  year = {2024},
  publisher = {Wiley Online Library},
  doi = {https://doi.org/10.1002/ppj2.70002},
  owner = {Ostermann24PlantPhenome.jpg},
  pdf = {../papers/Ostermann24PlantPhenome.pdf}
}

Warner, C., Wu, F., Gazo, R., Benes, B., Kong, N., & Fei, S. (2024). CentralBark Image Dataset and Tree Species Classification Using Deep Learning. Algorithms, 17(5). https://doi.org/10.3390/a17050179

@article{Warner24Algorithms,
  author = {Warner, Charles and Wu, Fanyou and Gazo, Rado and Benes, Bedrich and Kong, Nicole and Fei, Songlin},
  title = {CentralBark Image Dataset and Tree Species Classification Using Deep Learning},
  journal = {Algorithms},
  volume = {17},
  year = {2024},
  number = {5},
  article-number = {179},
  url = {https://www.mdpi.com/1999-4893/17/5/179},
  issn = {1999-4893},
  doi = {10.3390/a17050179},
  owner = {Warner24Algorithms.png},
  pdf = {../papers/Warner24Algorithms.pdf}
}

2023

Rhizomorph: The Coordinated Function of Shoots and Roots. (2023). ACM Transactions on Graphics, 42(4). https://doi.org/https://doi.org/10.1145/3592145

Replicability Stamp https://www.replicabilitystamp.org/#https-github-com-edisonlee0212-rhizomorph

@article{Li23ToG,
  author = {},
  title = {Rhizomorph: The Coordinated Function of Shoots and Roots},
  journal = {ACM Transactions on Graphics},
  year = {2023},
  month = aug,
  volume = {42},
  number = {4},
  doi = {https://doi.org/10.1145/3592145},
  publisher = {ACM},
  address = {New York, NY, USA},
  owner = {Li23ToG.png},
  pdf = {../papers/Li23ToG.pdf},
  link = {https://youtu.be/dYnO0Yqek8M},
  note = {Replicability Stamp https://www.replicabilitystamp.org/#https-github-com-edisonlee0212-rhizomorph}
}

Zhou, X., Li, B., Benes, B., Fei, S., & Pirk, S. (2023). DeepTree: Modeling Trees with Situated Latents. IEEE Transactions on Visualization & Computer Graphics, 01, 1–14. https://doi.org/10.1109/TVCG.2023.3307887

@article{Zhou23TVCG,
  author = {Zhou, Xiaochen and Li, Bosheng and Benes, Bedrich and Fei, Songlin and Pirk, Soeren},
  journal = {IEEE Transactions on Visualization \& Computer Graphics},
  title = {DeepTree: Modeling Trees with Situated Latents},
  year = {2023},
  volume = {},
  number = {01},
  issn = {1941-0506},
  pages = {1-14},
  keywords = {},
  doi = {10.1109/TVCG.2023.3307887},
  publisher = {IEEE Computer Society},
  address = {Los Alamitos, CA, USA},
  month = aug,
  owner = {Zhou23TVCG.png},
  pdf = {../papers/Zhou23TVCG.pdf},
  link = {https://youtu.be/BlRmakGaA2Q}
}

Firoze, A., Wingren, C., Yeh, R. A., Benes, B., & Aliaga, D. (2023). Tree Instance Segmentation With Temporal Contour Graph. Proceedings of the IEEE/CVF Conference on Computer Vision and Pattern Recognition (CVPR), 2193–2202.
```
@inproceedings{Firoze23CVPR,
  author = {Firoze, Adnan and Wingren, Cameron and Yeh, Raymond A. and Benes, Bedrich and Aliaga, Daniel},
  title = {Tree Instance Segmentation With Temporal Contour Graph},
  booktitle = {Proceedings of the IEEE/CVF Conference on Computer Vision and Pattern Recognition (CVPR)},
  month = jun,
  year = {2023},
  pages = {2193-2202},
  owner = {Firoze23CVPR.png},
  pdf = {../papers/Firoze23CVPR.pdf}
}
```

2022

Niese, T., Pirk, S., Albrecht, M., Benes, B., & Deussen, O. (2022). Procedural Urban Forestry. ACM Trans. Graph., 41(2). https://doi.org/10.1145/3502220

@article{Niese2022ToG,
  title = {Procedural Urban Forestry},
  author = {Niese, Till and Pirk, S\"{o}ren and Albrecht, Matthias and Benes, Bedrich and Deussen, Oliver},
  journal = {ACM Trans. Graph.},
  year = {2022},
  publisher = {Association for Computing Machinery},
  address = {New York, NY, USA},
  volume = {41},
  number = {2},
  issn = {0730-0301},
  url = {https://doi.org/10.1145/3502220},
  doi = {10.1145/3502220},
  month = mar,
  articleno = {20},
  numpages = {18},
  owner = {Niese22ToG.png},
  pdf = {../papers/Niese22ToG.pdf}
}

Firoze, A., Benes, B., & Aliaga, D. (2022). Urban tree generator: spatio-temporal and generative deep learning for urban tree localization and modeling. The Visual Computer. https://doi.org/10.1007/s00371-022-02526-x

@article{Firoze22VisComp,
  author = {Firoze, Adnan and Benes, Bedrich and Aliaga, Daniel},
  title = {Urban tree generator: spatio-temporal and generative deep learning for urban tree localization and modeling},
  journal = {The Visual Computer},
  volume = {},
  year = {2022},
  number = {},
  url = {https://link.springer.com/article/10.1007/s00371-022-02526-x},
  doi = {10.1007/s00371-022-02526-x},
  owner = {Firoze22VisComp.jpg},
  pdf = {../papers/Firoze22VisComp.pdf}
}

2021

Polasek, T., Hrusa, D., Benes, B., & Cadik, M. (2021). ICTree: Automatic Perceptual Metrics for Tree Models. ACM Transactions on Graphics, 40(6), 1–15. https://doi.org/10.1145/3478513.3480519

@article{Polasek2021ToG,
  title = {ICTree: Automatic Perceptual Metrics for Tree Models},
  author = {Polasek, Tomas and Hrusa, David and Benes, Bedrich and Cadik, Martin},
  journal = {ACM Transactions on Graphics},
  year = {2021},
  month = dec,
  volume = {40},
  number = {6},
  pages = {1-15},
  articleno = {230},
  doi = {10.1145/3478513.3480519},
  publisher = {ACM},
  address = {New York, NY, USA},
  owner = {Polasek21ToG.png},
  pdf = {../papers/Polasek21ToG.pdf}
}

Li, B., Kałużny, J., Klein, J., Michels, D. L., Pałubicki, W., Benes, B., & Pirk, S. (2021). Learning to Reconstruct Botanical Trees from Single Images. ACM Transactions on Graphics, 40(6), 1–15. https://doi.org/10.1145/3478513.3480525

@article{Li2021ToG,
  title = {Learning to Reconstruct Botanical Trees from Single Images},
  author = {Li, Bosheng and Ka{\l}u{\.z}ny, Jacek and Klein, Jonathan and Michels, Dominik L. and Pa{\l}ubicki, Wojtek and Benes, Bedrich and Pirk, S\"oren},
  journal = {ACM Transactions on Graphics},
  year = {2021},
  month = dec,
  volume = {40},
  number = {6},
  pages = {1–15},
  articleno = {231},
  doi = {10.1145/3478513.3480525},
  publisher = {ACM},
  owner = {Li21ToG.png},
  pdf = {../papers/Li21ToG.pdf},
  link = {https://youtu.be/5HJSHJvlMFE}
}

Liu, Y., Guo, J., Benes, B., Deussen, O., Zhang, X., & Huang, H. (2021). TreePartNet: Neural Decomposition of Point Clouds for 3D Tree Reconstruction. ACM Transactions on Graphics, 40(6), 1–16. https://doi.org/10.1145/3478513.3480486

@article{Liu2021ToG,
  author = {Liu, Yanchao and Guo, Jianwei and Benes, Bedrich and Deussen, Oliver and Zhang, Xiaopeng and Huang, Hui},
  title = {TreePartNet: Neural Decomposition of Point Clouds for 3D Tree Reconstruction},
  journal = {ACM Transactions on Graphics},
  year = {2021},
  month = dec,
  volume = {40},
  number = {6},
  articleno = {232},
  pages = {1-16},
  doi = {10.1145/3478513.3480486},
  publisher = {ACM},
  address = {New York, NY, USA},
  owner = {Liu21ToG.png},
  pdf = {../papers/Liu21ToG.pdf}
}

Ecormier-Nocca, P., Cordonnier, G., Carrez, P., Moigne, A.-marie, Memari, P., Benes, B., & Cani, M.-P. (2021). Authoring Consistent Landscapes with Flora and Fauna. ACM Transactions on Graphics, 40(4). https://doi.org/10.1145/3450626.3459952

@article{Nocca21ToG,
  title = {{Authoring Consistent Landscapes with Flora and Fauna}},
  author = {Ecormier-Nocca, Pierre and Cordonnier, Guillaume and Carrez, Philippe and Moigne, Anne-marie and Memari, Pooran and Benes, Bedrich and Cani, Marie-Paule},
  journal = {ACM Transactions on Graphics},
  year = {2021},
  owner = {nocca21tog.png},
  doi = {10.1145/3450626.3459952},
  issue_date = {August 2021},
  publisher = {Association for Computing Machinery},
  address = {New York, NY, USA},
  volume = {40},
  number = {4},
  pdf = {../papers/Nocca21ToG.pdf},
  link = {https://youtu.be/nx1ULB80wrc}
}

Tross, M. C., Gaillard, M., Zweiner, M., Miao, C., Grove, R. J., Li, B., Benes, B., & Schnable, J. C. (2021). 3D reconstruction identifies loci linked to variation in angle of individual sorghum leaves. PeerJ, 9:e12628(1). https://doi.org/10.7717/peerj.12628

@article{Tross2021PeerJ,
  title = {3D reconstruction identifies loci linked to variation in angle of individual sorghum leaves},
  author = {Tross, Michael C. and Gaillard, Mathieu and Zweiner, Mackenzie and Miao, Chenyong and Grove, Ryleigh J. and Li, Bosheng and Benes, Bedrich and Schnable, James C.},
  journal = {PeerJ},
  year = {2021},
  month = dec,
  volume = {9:e12628},
  number = {1},
  doi = {10.7717/peerj.12628},
  publisher = {PeerJ},
  owner = {Tross21PeerJ.png},
  pdf = {../papers/Tross21PeerJ.pdf}
}

Wu, F., Gazo, R., Benes, B., & Haviarova, E. (2021). Deep BarkID: a portable tree bark identification system by knowledge distillation. European Journal of Forest Research. https://doi.org/10.1007/s10342-021-01407-7
```
@article{Wu2021EJFR,
  title = {{Deep BarkID: a portable tree bark identification system by knowledge distillation}},
  author = {Wu, Fanyou and Gazo, Rado and Benes, Bedrich and Haviarova, Eva},
  journal = {European Journal of Forest Research},
  year = {2021},
  owner = {Wu2021EJFR.png},
  pdf = {../papers/Wu2021EJFR.pdf},
  doi = {10.1007/s10342-021-01407-7},
  code = {https://github.com/wufanyou/DBID}
}
```
Wu, F., Gazo, R., Haviarova, E., & Benes, B. (2021). Wood identification based on longitudinal section images by using deep learning. Wood Science and Technology, 55, 553–563. https://doi.org/10.1007/s00226-021-01261-1
```
@article{Wu2021WST,
  title = {Wood identification based on longitudinal section images by using deep learning},
  author = {Wu, Fanyou and Gazo, Rado and Haviarova, Eva and Benes, Bedrich},
  journal = {Wood Science and Technology},
  volume = {55},
  pages = {553-563},
  year = {2021},
  publisher = {Springer},
  issn = {1432-5225},
  doi = {10.1007/s00226-021-01261-1},
  owner = {Wu2021WST.jpg},
  pdf = {../papers/Wu2021WST.pdf}
}
```

Kolmanič, S., Strnad, D., Kohek, Š., Benes, B., Hirst, P., & Žalik, B. (2021). An algorithm for automatic dormant tree pruning. Applied Soft Computing, 99, 106931. https://doi.org/10.1016/j.asoc.2020.106931

@article{Kolmanic21ASC,
  title = {An algorithm for automatic dormant tree pruning},
  author = {Kolmani{\v{c}}, Simon and Strnad, Damjan and Kohek, {\v{S}}tefan and Benes, Bedrich and Hirst, Peter and {\v{Z}}alik, Borut},
  journal = {Applied Soft Computing},
  volume = {99},
  pages = {106931},
  year = {2021},
  publisher = {Elsevier},
  issn = {1568-4946},
  doi = {10.1016/j.asoc.2020.106931},
  url = {http://www.sciencedirect.com/science/article/pii/S1568494620308693},
  owner = {Kolmanic21ASC.jpg},
  pdf = {../papers/Kolmanic21ASC.pdf}
}

2020

Guo, J., Jiang, H., Benes, B., Deussen, O., Zhang, X., Lischinski, D., & Huang, H. (2020). Inverse Procedural Modeling of Branching Structures by Inferring L-Systems. ACM Trans. Graph., 39(5). https://doi.org/10.1145/3394105

@article{Guo20ToG,
  author = {Guo, Jianwei and Jiang, Haiyong and Benes, Bedrich and Deussen, Oliver and Zhang, Xiaopeng and Lischinski, Dani and Huang, Hui},
  title = {Inverse Procedural Modeling of Branching Structures by Inferring L-Systems},
  year = {2020},
  issue_date = {August 2020},
  publisher = {Association for Computing Machinery},
  address = {New York, NY, USA},
  volume = {39},
  number = {5},
  issn = {0730-0301},
  url = {https://doi.org/10.1145/3394105},
  doi = {10.1145/3394105},
  journal = {ACM Trans. Graph.},
  month = jun,
  articleno = {155},
  numpages = {13},
  owner = {Guo20ToG.png},
  pdf = {../papers/Guo20ToG.pdf}
}

Benes, B., Guan, K., Lang, M., Long, S. P., Lynch, J. P., Marshall-Colón, A., Peng, B., Schnable, J., Sweetlove, L. J., & Turk, M. J. (2020). Multiscale computational models can guide experimentation and targeted measurements for crop improvement. The Plant Journal, 103(1), 21–31. https://doi.org/10.1111/tpj.14722

@article{Benes20TPJ,
  author = {Benes, Bedrich and Guan, Kaiyu and Lang, Meagan and Long, Stephen P. and Lynch, Jonathan P. and Marshall-Colón, Amy and Peng, Bin and Schnable, James and Sweetlove, Lee J. and Turk, Matthew J.},
  title = {Multiscale computational models can guide experimentation and targeted measurements for crop improvement},
  journal = {The Plant Journal},
  volume = {103},
  number = {1},
  pages = {21-31},
  keywords = {photosynthesis, flux modeling, whole-plant architecture, transcriptional regulation, multiscale modeling},
  doi = {10.1111/tpj.14722},
  url = {https://onlinelibrary.wiley.com/doi/abs/10.1111/tpj.14722},
  eprint = {https://onlinelibrary.wiley.com/doi/pdf/10.1111/tpj.14722},
  year = {2020},
  owner = {Benes20TPJ.png},
  pdf = {../papers/Benes20TPJ.pdf}
}

Strnad, D., Štefan Kohek, Benes, B., Kolmanič, S., & Žalik, B. (2020). A framework for multi-objective optimization of virtual tree pruning based on growth simulation. Expert Systems with Applications, 162, 113792. https://doi.org/https://doi.org/10.1016/j.eswa.2020.113792

@article{Strnad20ESA,
  title = {A framework for multi-objective optimization of virtual tree pruning based on growth simulation},
  journal = {Expert Systems with Applications},
  volume = {162},
  pages = {113792},
  year = {2020},
  issn = {0957-4174},
  doi = {https://doi.org/10.1016/j.eswa.2020.113792},
  url = {http://www.sciencedirect.com/science/article/pii/S0957417420306138},
  author = {Strnad, Damjan and \v{S}tefan Kohek and Benes, Bedrich and Kolmani\v{c}, Simon and \v{Z}alik, Borut},
  owner = {Strnad20ESA.png},
  pdf = {../papers/Strnad20ESA.pdf}
}

Gaillard, M., Miao, C., Schnable, J. C., & Benes, B. (2020). Voxel carving-based 3D reconstruction of sorghum identifies genetic determinants of light interception efficiency. Plant Direct, 4(10), e00255. https://doi.org/10.1002/pld3.255

@article{Gaillard20PlantDirect,
  author = {Gaillard, Mathieu and Miao, Chenyong and Schnable, James C. and Benes, Bedrich},
  title = {Voxel carving-based 3D reconstruction of sorghum identifies genetic determinants of light interception efficiency},
  journal = {Plant Direct},
  volume = {4},
  number = {10},
  pages = {e00255},
  keywords = {3D plant reconstruction, phenotyping, quantitative genetics, sorghum},
  doi = {10.1002/pld3.255},
  year = {2020},
  owner = {Gaillard20PlantDirect.jpg},
  pdf = {../papers/Gaillard20PlantDirect.pdf},
  code = {https://github.com/cropsinsilico/SorghumVoxelCarving}
}

Gaillard, M., Miao, C., Schnable, J., & Benes, B. (2020). Sorghum Segmentation by Skeleton Extraction. In A. Bartoli & A. Fusiello (Eds.), Computer Vision – ECCV 2020 Workshops (pp. 296–311). Springer International Publishing. https://doi.org/ 10.1007/978-3-030-65414-6_21

@inproceedings{Gaillar20CVPP,
  author = {Gaillard, Mathieu and Miao, Chenyong and Schnable, James and Benes, Bedrich},
  editor = {Bartoli, Adrien and Fusiello, Andrea},
  title = {Sorghum Segmentation by Skeleton Extraction},
  booktitle = {Computer Vision -- ECCV 2020 Workshops},
  year = {2020},
  publisher = {Springer International Publishing},
  address = {Cham},
  pages = {296--311},
  doi = { 10.1007/978-3-030-65414-6_21},
  isbn = {978-3-030-65414-6},
  owner = {Gaillard20CVPP.jpg},
  pdf = {../papers/Gaillard20CVPP.pdf}
}

Gazo, R., Vanek, J., Abdul-Massih, M., & Benes, B. (2020). A fast pith detection for computed tomography scanned hardwood logs. Computers and Electronics in Agriculture, 170, 105107. https://doi.org/https://doi.org/10.1016/j.compag.2019.105107

@article{Gazo20,
  title = {A fast pith detection for computed tomography scanned hardwood logs},
  journal = {Computers and Electronics in Agriculture},
  volume = {170},
  pages = {105107},
  year = {2020},
  issn = {0168-1699},
  doi = {https://doi.org/10.1016/j.compag.2019.105107},
  url = {http://www.sciencedirect.com/science/article/pii/S0168169919307598},
  author = {Gazo, Rado and Vanek, Juraj and Abdul-Massih, Michel and Benes, Bedrich},
  owner = {Gazo20CEA.png},
  pdf = {../papers/Gazo20CEA.pdf}
}

2019

Gaillard, M., Benes, B., Guérin, E., Galin, E., Rohmer, D., & Cani, M.-P. (2019). Dendry: A Procedural Model for Dendritic Patterns. Proceedings of the ACM SIGGRAPH Symposium on Interactive 3D Graphics and Games, 16:1–16:9. https://doi.org/10.1145/3306131.3317020

@inproceedings{Gaillard19I3D,
  author = {Gaillard, Mathieu and Benes, Bedrich and Gu{\'e}rin, Eric and Galin, Eric and Rohmer, Damien and Cani, Marie-Paule},
  title = {Dendry: A Procedural Model for Dendritic Patterns},
  booktitle = {Proceedings of the ACM SIGGRAPH Symposium on Interactive 3D Graphics and Games},
  year = {2019},
  series = {I3D '19},
  pages = {16:1--16:9},
  address = {New York, NY, USA},
  publisher = {ACM},
  acmid = {3317020},
  articleno = {16},
  doi = {10.1145/3306131.3317020},
  isbn = {978-1-4503-6310-5},
  keywords = {dendritic patterns, geometric modeling, procedural modeling, terrain modeling},
  location = {Montreal, Quebec, Canada},
  numpages = {9},
  owner = {Gaillard19I3D.PNG},
  pdf = {../papers/Gaillard19I3D.pdf},
  url = {http://doi.acm.org/10.1145/3306131.3317020}
}

2018

Gazo, R., Wells, L., Krs, V., & Benes, B. (2018). Validation of automated hardwood lumber grading system. Computers and Electronics in Agriculture, 155, 496–500. https://doi.org/https://doi.org/10.1016/j.compag.2018.06.041

@article{gazo2018validation,
  author = {Gazo, Rado and Wells, Logan and Krs, Vojtech and Benes, Bedrich},
  title = {Validation of automated hardwood lumber grading system},
  journal = {Computers and Electronics in Agriculture},
  year = {2018},
  volume = {155},
  pages = {496 - 500},
  issn = {0168-1699},
  owner = {Gazo18ComElAg.jpg},
  doi = {https://doi.org/10.1016/j.compag.2018.06.041},
  keywords = {Automated, Hardwood, Lumber, Grading, Scanning, NHLA},
  pdf = {../papers/Gazo18ComElAg.pdf},
  url = {http://www.sciencedirect.com/science/article/pii/S0168169918305593}
}

Wells, L., Gazo, R., Re, R. D., Krs, V., & Benes, B. (2018). Defect detection performance of automated hardwood lumber grading system. Computers and Electronics in Agriculture, 155, 487–495. https://doi.org/https://doi.org/10.1016/j.compag.2018.09.025

@article{wells2018defect,
  title = {Defect detection performance of automated hardwood lumber grading system},
  journal = {Computers and Electronics in Agriculture},
  volume = {155},
  pages = {487 - 495},
  year = {2018},
  issn = {0168-1699},
  doi = {https://doi.org/10.1016/j.compag.2018.09.025},
  url = {http://www.sciencedirect.com/science/article/pii/S016816991830615X},
  author = {Wells, Logan and Gazo, Rado and Re, Riccardo Del and Krs, Vojtech and Benes, Bedrich},
  keywords = {Hardwood, Lumber, NHLA, Grading, Defect, Detection},
  owner = {Wells18ElAg.jpg},
  pdf = {../papers/Wells18ElAg.pdf}
}

2017

Cordonnier, G., Galin, E., Gain, J., Benes, B., Guérin, E., Peytavie, A., & Cani, M.-P. (2017). Authoring Landscapes by Combining Ecosystem and Terrain Erosion Simulation. ACM Trans. Graph., 36(4), 134:1–134:12. https://doi.org/10.1145/3072959.3073667

@article{cordonnier2017authoring,
  author = {Cordonnier, Guillaume and Galin, Eric and Gain, James and Benes, Bedrich and Gu{\'e}rin, Eric and Peytavie, Adrien and Cani, Marie-Paule},
  title = {Authoring Landscapes by Combining Ecosystem and Terrain Erosion Simulation},
  journal = {ACM Trans. Graph.},
  issue_date = {July 2017},
  volume = {36},
  number = {4},
  month = jul,
  year = {2017},
  issn = {0730-0301},
  pages = {134:1--134:12},
  articleno = {134},
  numpages = {12},
  url = {http://doi.acm.org/10.1145/3072959.3073667},
  doi = {10.1145/3072959.3073667},
  acmid = {3073667},
  publisher = {ACM},
  address = {New York, NY, USA},
  owner = {Cordonnier17ToG.jpg},
  pdf = {../papers/Cordonnier17ToG.pdf},
  link = {https://www.youtube.com/watch?v=9NXL48-Fbb8}
}

Hädrich, T., Benes, B., Deussen, O., & Pirk, S. (2017). Interactive modeling and authoring of climbing plants. Computer Graphics Forum, 36(2), 49–61. https://doi.org/10.1111/cgf.13106

Honorable mention from the Best Papers Committee

@article{hadrich2017interactive,
  author = {H{\"a}drich, Torsten and Benes, Bedrich and Deussen, Oliver and Pirk, S{\"o}ren},
  title = {Interactive modeling and authoring of climbing plants},
  booktitle = {Computer Graphics Forum},
  year = {2017},
  volume = {36},
  number = {2},
  pages = {49--61},
  doi = {10.1111/cgf.13106},
  url = {https://onlinelibrary.wiley.com/doi/abs/10.1111/cgf.13106},
  eprint = {https://onlinelibrary.wiley.com/doi/pdf/10.1111/cgf.13106},
  note = {Honorable mention from the Best Papers Committee},
  owner = {Haedrich17CGF.jpg},
  pdf = {../papers/Haedrich2017EG.pdf},
  link = {https://vimeo.com/202297005}
}

Marshall-Colon, A., Long, S. P., Allen, D. K., Allen, G., Beard, D. A., Benes, B., von Caemmerer, S., Christensen, A. J., Cox, D. J., Hart, J. C., Hirst, P. M., Kannan, K., Katz, D. S., Lynch, J. P., Millar, A. J., Panneerselvam, B., Price, N. D., Prusinkiewicz, P., Raila, D., … Zhu, X.-G. (2017). Crops In Silico: Generating Virtual Crops Using an Integrative and Multi-scale Modeling Platform. Frontiers in Plant Science, 8, 786. https://doi.org/10.3389/fpls.2017.00786

@article{marshall2017crops,
  author = {Marshall-Colon, Amy and Long, Stephen P. and Allen, Douglas K. and Allen, Gabrielle and Beard, Daniel A. and Benes, Bedrich and von Caemmerer, Susanne and Christensen, A. J. and Cox, Donna J. and Hart, John C. and Hirst, Peter M. and Kannan, Kavya and Katz, Daniel S. and Lynch, Jonathan P. and Millar, Andrew J. and Panneerselvam, Balaji and Price, Nathan D. and Prusinkiewicz, Przemyslaw and Raila, David and Shekar, Rachel G. and Shrivastava, Stuti and Shukla, Diwakar and Srinivasan, Venkatraman and Stitt, Mark and Turk, Matthew J. and Voit, Eberhard O. and Wang, Yu and Yin, Xinyou and Zhu, Xin-Guang},
  title = {Crops In Silico: Generating Virtual Crops Using an Integrative and Multi-scale Modeling Platform},
  journal = {Frontiers in Plant Science},
  volume = {8},
  pages = {786},
  year = {2017},
  url = {https://www.frontiersin.org/article/10.3389/fpls.2017.00786},
  issn = {1664-462X},
  owner = {Marshall-Colon17CIS.png},
  pdf = {../papers/Marshall-Colon17Frontiers.pdf},
  doi = {10.3389/fpls.2017.00786}
}

Fišer, M., Ravi, J., Benes, B., Shi, B., & Hirst, P. (2017). IMapple: a source-sink developmental model for’Golden Delicious’ apple trees. Acta Hortic, 51–60. https://doi.org/doi.org/10.17660/ActaHortic.2017.1160.8
```
@article{Fiser17ActHort,
  author = {Fi\v{s}er, Marek and Ravi, Jakumarani and Benes, Bedrich and Shi, Bying and Hirst, Peter},
  title = {IMapple: a source-sink developmental model for'Golden Delicious' apple trees},
  booktitle = {Acta Hortic},
  year = {2017},
  pages = {51--60},
  owner = {Fiser17Acta.jpg},
  doi = {doi.org/10.17660/ActaHortic.2017.1160.8},
  pdf = {../papers/Fiser17ActaHort.pdf}
}
```

2016

Pirk, S., Benes, B., Ijiri, T., Li, Y., Deussen, O., Chen, B., & Měch, R. (2016). Modeling Plant Life in Computer Graphics. ACM SIGGRAPH 2016 Courses, 18:1–18:180. https://doi.org/10.1145/2897826.2927332

@inproceedings{Pirk16SiggCourse,
  author = {Pirk, S\"{o}ren and Benes, Bedrich and Ijiri, Takashi and Li, Yangyan and Deussen, Oliver and Chen, Baoquan and M\v{e}ch, Radomir},
  title = {Modeling Plant Life in Computer Graphics},
  booktitle = {ACM SIGGRAPH 2016 Courses},
  series = {SIGGRAPH '16},
  year = {2016},
  isbn = {978-1-4503-4289-6},
  location = {Anaheim, California},
  pages = {18:1--18:180},
  articleno = {18},
  numpages = {180},
  url = {http://doi.acm.org/10.1145/2897826.2927332},
  doi = {10.1145/2897826.2927332},
  acmid = {2927332},
  publisher = {ACM},
  owner = {Pirk16SiggCourse.jpg},
  address = {New York, NY, USA},
  pdf = {../papers/Pirk16SiggCourse.pdf}
}

Kang, H., Fiser, M., Shi, B., Sheibani, F., Hirst, P., & Benes, B. (2016). IMapple - Functional structural model of apple trees. 2016 IEEE International Conference on Functional-Structural Plant Growth Modeling, Simulation, Visualization and Applications (FSPMA), 90–97. https://doi.org/10.1109/FSPMA.2016.7818293
```
@inproceedings{kang2016imapple,
  author = {Kang, Hao and Fiser, Marek and Shi, Biying and Sheibani, Fatemeh and Hirst, Peter and Benes, Bedrich},
  title = {IMapple - Functional structural model of apple trees},
  booktitle = {2016 IEEE International Conference on Functional-Structural Plant Growth Modeling, Simulation, Visualization and Applications (FSPMA)},
  year = {2016},
  pages = {90-97},
  month = nov,
  owner = {Kang16FSPMA.jpg},
  doi = {10.1109/FSPMA.2016.7818293},
  pdf = {../papers/Kang16FSPM.pdf}
}
```

2015

Emilien, A., Vimont, U., Cani, M.-P., Poulin, P., & Benes, B. (2015). WorldBrush: Interactive Example-Based Synthesis of Procedural Virtual Worlds. ACM Trans. Graph., 34(4). https://doi.org/10.1145/2766975

@article{Emilien15ToG,
  author = {Emilien, Arnaud and Vimont, Ulysse and Cani, Marie-Paule and Poulin, Pierre and Benes, Bedrich},
  title = {WorldBrush: Interactive Example-Based Synthesis of Procedural Virtual Worlds},
  year = {2015},
  issue_date = {August 2015},
  publisher = {Association for Computing Machinery},
  address = {New York, NY, USA},
  volume = {34},
  number = {4},
  issn = {0730-0301},
  url = {https://doi.org/10.1145/2766975},
  doi = {10.1145/2766975},
  journal = {ACM Trans. Graph.},
  month = jul,
  articleno = {106},
  numpages = {11},
  owner = {Emilien15ToG.jpg},
  pdf = {../papers/Emilien15ToG.pdf}
}

Kratt, J., Spicker, M., Guayaquil, A., Fiser, M., Pirk, S., Deussen, O., Hart, J. C., & Benes, B. (2015). Woodification: User-Controlled Cambial Growth Modeling. Computer Graphics Forum, 34(2), 361–372. https://doi.org/10.1111/cgf.12566

@article{Kratt15CGF,
  author = {Kratt, J. and Spicker, M. and Guayaquil, A. and Fiser, M. and Pirk, S. and Deussen, O. and Hart, J. C. and Benes, B.},
  title = {Woodification: User-Controlled Cambial Growth Modeling},
  journal = {Computer Graphics Forum},
  volume = {34},
  number = {2},
  pages = {361-372},
  doi = {10.1111/cgf.12566},
  url = {https://onlinelibrary.wiley.com/doi/abs/10.1111/cgf.12566},
  year = {2015},
  owner = {Kratt15CGF.jpg},
  eprint = {https://onlinelibrary.wiley.com/doi/pdf/10.1111/cgf.12566},
  link = {https://youtu.be/gUjRWUEor3s},
  pdf = {../papers/Kratt15CGF.pdf}
}

2014

Pirk, S., Niese, T., Hädrich, T., Benes, B., & Deussen, O. (2014). Windy Trees: Computing Stress Response for Developmental Tree Models. ACM Trans. Graph., 33(6). https://doi.org/10.1145/2661229.2661252

@article{Pirk14ToG,
  author = {Pirk, S{\"o}ren and Niese, Till and H{\"a}drich, Torsten and Benes, Bedrich and Deussen, Oliver},
  title = {Windy Trees: Computing Stress Response for Developmental Tree Models},
  year = {2014},
  issue_date = {November 2014},
  publisher = {Association for Computing Machinery},
  address = {New York, NY, USA},
  volume = {33},
  number = {6},
  issn = {0730-0301},
  url = {https://doi.org/10.1145/2661229.2661252},
  doi = {10.1145/2661229.2661252},
  journal = {ACM Trans. Graph.},
  month = nov,
  articleno = {204},
  numpages = {11},
  owner = {Pirk14ToG.jpg},
  link = {https://youtu.be/QaYSPDuveWY},
  pdf = {../papers/Pirk14ToG.pdf}
}

Šťava, O., Pirk, S., Kratt, J., Chen, B., Měch, R., Deussen, O., & Benes, B. (2014). Inverse Procedural Modelling of Trees. Computer Graphics Forum, 33(6), 118–131. https://doi.org/10.1111/cgf.12282

@article{Stava14CFG,
  author = {\v{S}\v{t}ava, O. and Pirk, S. and Kratt, J. and Chen, B. and M\v{e}ch, R. and Deussen, O. and Benes, B.},
  title = {Inverse Procedural Modelling of Trees},
  journal = {Computer Graphics Forum},
  volume = {33},
  number = {6},
  pages = {118-131},
  doi = {10.1111/cgf.12282},
  link = {https://youtu.be/An-k7Mx3xVc},
  eprint = {https://onlinelibrary.wiley.com/doi/pdf/10.1111/cgf.12282},
  year = {2014},
  owner = {Stava14CFG.jpg},
  pdf = {../papers/Stava14CGF.pdf}
}

2012

Pirk, S., Stava, O., Kratt, J., Said, M. A. M., Neubert, B., Měch Radomı́r, Benes, B., & Deussen, O. (2012). Plastic Trees: Interactive Self-Adapting Botanical Tree Models. ACM Trans. Graph., 31(4). https://doi.org/10.1145/2185520.2185546

@article{Pirk12ToG,
  author = {Pirk, S\"{o}ren and Stava, Ondrej and Kratt, Julian and Said, Michel Abdul Massih and Neubert, Boris and M\v{e}ch, Radom\'{\i}r and Benes, Bedrich and Deussen, Oliver},
  title = {Plastic Trees: Interactive Self-Adapting Botanical Tree Models},
  year = {2012},
  issue_date = {July 2012},
  publisher = {Association for Computing Machinery},
  address = {New York, NY, USA},
  volume = {31},
  number = {4},
  issn = {0730-0301},
  url = {https://doi.org/10.1145/2185520.2185546},
  link = {https://youtu.be/ZmGVnG_pRNs},
  doi = {10.1145/2185520.2185546},
  journal = {ACM Trans. Graph.},
  month = jul,
  articleno = {50},
  numpages = {10},
  owner = {Pirk12ToG.jpg},
  pdf = {../papers/Pirk12ToG.pdf}
}

2011

Benes, B., Massih, M. A., Jarvis, P., Aliaga, D. G., & Vanegas, C. A. (2011). Urban Ecosystem Design. Symposium on Interactive 3D Graphics and Games, 167–174. https://doi.org/10.1145/1944745.1944773

@inproceedings{Benes11I3D,
  author = {Benes, Bedrich and Massih, Michel Abdul and Jarvis, Philip and Aliaga, Daniel G. and Vanegas, Carlos A.},
  title = {Urban Ecosystem Design},
  year = {2011},
  isbn = {9781450305655},
  publisher = {Association for Computing Machinery},
  address = {New York, NY, USA},
  booktitle = {Symposium on Interactive 3D Graphics and Games},
  pages = {167–174},
  numpages = {8},
  keywords = {urban simulation, procedural modeling, virtual ecosystems},
  location = {San Francisco, California},
  series = {I3D ’11},
  doi = {10.1145/1944745.1944773},
  owner = {Benes11I3D.jpg},
  pdf = {../papers/Benes11I3D.pdf}
}

2010

Št’ava, O., Benes, B., Měch, R., Aliaga, D. G., & Krištof, P. (2010). Inverse Procedural Modeling by Automatic Generation of L-systems. Computer Graphics Forum, 29(2), 665–674. https://doi.org/10.1111/j.1467-8659.2009.01636.x

@article{Stava10CGF,
  author = {{\v{S}}t'ava, Ondrej and Benes, Bedrich and M{\v{e}}ch, Radomir and Aliaga, Daniel G and Kri{\v{s}}tof, Peter},
  title = {Inverse Procedural Modeling by Automatic Generation of L-systems},
  journal = {Computer Graphics Forum},
  volume = {29},
  number = {2},
  pages = {665-674},
  doi = {10.1111/j.1467-8659.2009.01636.x},
  url = {https://onlinelibrary.wiley.com/doi/abs/10.1111/j.1467-8659.2009.01636.x},
  eprint = {https://onlinelibrary.wiley.com/doi/pdf/10.1111/j.1467-8659.2009.01636.x},
  year = {2010},
  owner = {Stava10CGF.jpg},
  pdf = {../papers/Stava10CGF.pdf},
  link = {../papers/Stava10CGFVideo.zip}
}

2009

Benes, B., Andrysco, N., & Št’ava, O. (2009). Interactive Modeling of Virtual Ecosystems. Proceedings of the Fifth Eurographics Conference on Natural Phenomena, 9–16. https://doi.org/10.5555/2381692.2381694

@inproceedings{Benes09NPH,
  author = {Benes, Bedrich and Andrysco, Nathan and \v{S}t’ava, Ond\v{r}ej},
  title = {Interactive Modeling of Virtual Ecosystems},
  year = {2009},
  isbn = {9783905674118},
  publisher = {Eurographics Association},
  address = {Goslar, DEU},
  booktitle = {Proceedings of the Fifth Eurographics Conference on Natural Phenomena},
  pages = {9–16},
  numpages = {8},
  location = {Munich, Germany},
  series = {NPH’09},
  doi = {10.5555/2381692.2381694},
  link = {https://www.youtube.com/watch?v=8PRpJ1BpVjI},
  owner = {Benes09NPH.jpg},
  pdf = {../papers/Benes09EGNat.pdf}
}

2004

Benes, B., & Guerrero, J. M. S. (2004). Clustering in virtual plant ecosystems. WSCG SHORT Communication Papers Proceedings.
```
@inproceedings{Benes04WSCGb,
  author = {Benes, Bedrich and Guerrero, Juan Miguel Soto},
  title = {Clustering in virtual plant ecosystems},
  booktitle = {WSCG SHORT Communication papers proceedings},
  year = {2004},
  owner = {Benes04WSCGb.png},
  pdf = {../papers/Benes04WSCGb.pdf}
}
```

2003

Benes, B., & Cordóba, J. A. (2003). Modeling virtual gardens by autonomous procedural agents. Proceedings of Theory and Practice of Computer Graphics, 2003., 58–65. https://doi.org/10.1109/TPCG.2003.1206931
```
@inproceedings{Benes03TPCG,
  author = {Benes, Bedrich and Cord{\'o}ba, Javier Abdul},
  title = {Modeling virtual gardens by autonomous procedural agents},
  booktitle = {Proceedings of Theory and Practice of Computer Graphics, 2003.},
  year = {2003},
  pages = {58--65},
  organization = {IEEE},
  doi = {10.1109/TPCG.2003.1206931},
  owner = {Benes03TPCG.jpg},
  pdf = {../papers/Benes03TPCG.pdf}
}
```

Benes, B., & Espinosa, E. D. (2003). Modeling virtual ecosystems with the proactive guidance of agents. Computer Animation and Social Agents, 2003. 16th International Conference On, 126–131. https://doi.org/10.1109/CASA.2003.1199313

@inproceedings{Benes03CASA,
  author = {Benes, Bedrich and Espinosa, Enrique David},
  title = {Modeling virtual ecosystems with the proactive guidance of agents},
  booktitle = {Computer Animation and Social Agents, 2003. 16th International Conference on},
  year = {2003},
  pages = {126--131},
  organization = {IEEE},
  doi = {10.1109/CASA.2003.1199313},
  owner = {Benes03CASA.jpg},
  pdf = {../papers/Benes03CASA.pdf},
  link = {../papers/Benes03CASAVIDEO.zip}
}

Benes, B., Cordoba, J. A., & Soto, J. M. (2003). Interacting agents with memory in virtual ecosystems. Journal of WSCG.
```
@inproceedings{Benes03WSCG,
  author = {Benes, Bedrich and Cordoba, Javier Abdul and Soto, Juan Miguel},
  title = {Interacting agents with memory in virtual ecosystems},
  booktitle = {Journal of WSCG},
  publisher = {V{\'a}clav Skala-UNION Agency},
  year = {2003},
  owner = {Benes03WSCG.jpg},
  pdf = {../papers/Benes03WSCG.pdf}
}
```

2002

Beneš, B. (2002). A stable modeling of large plant ecosystems. Proceedings of the International Conference on Computer Vision and Graphics, 94–101.
```
@inproceedings{Benes02ICCVG,
  author = {Bene{\v{s}}, Bedrich},
  title = {A stable modeling of large plant ecosystems},
  booktitle = {Proceedings of the International Conference on Computer Vision and Graphics},
  year = {2002},
  pages = {94--101},
  owner = {Benes02ICCVG.png},
  pdf = {../papers/Benes02ICCVG.pdf}
}
```

Benes, B., & Millán, E. U. (2002). Virtual Climbing Plants Competing for Space. Computer Animation, 33. https://doi.org/10.1109/CA.2002.1017504

@inproceedings{Benes02CA,
  author = {Benes, Bedrich and Mill{\'a}n, Erik Uriel},
  booktitle = {Computer Animation},
  title = {Virtual Climbing Plants Competing for Space},
  year = {2002},
  volume = {},
  issn = {1087-4844},
  pages = {33},
  keywords = {virtual climbing plant;visual simulation;artificial life;collision detection;voxel space;particle system;oriented particles},
  doi = {10.1109/CA.2002.1017504},
  url = {https://doi.ieeecomputersociety.org/10.1109/CA.2002.1017504},
  publisher = {IEEE Computer Society},
  address = {Los Alamitos, CA, USA},
  month = jun,
  owner = {Benes02CA.jpg},
  pdf = {../papers/Benes02CA.pdf},
  link = {https://youtu.be/F2aYwU23XBY}
}

1998

Benes, B. (1998). Skylight approximation for simulation of plant development. Proceedings. 1998 IEEE Conference on Information Visualization. An International Conference on Computer Visualization and Graphics (Cat. No. 98TB100246), 146–150. https://doi.org/10.1109/IV.1998.694212
```
@inproceedings{Benes98IV,
  author = {Benes, Bedrich},
  title = {Skylight approximation for simulation of plant development},
  booktitle = {Proceedings. 1998 IEEE Conference on Information Visualization. An International Conference on Computer Visualization and Graphics (Cat. No. 98TB100246)},
  year = {1998},
  pages = {146--150},
  organization = {IEEE},
  doi = {10.1109/IV.1998.694212},
  owner = {Benes98IV.jpg},
  pdf = {../papers/Benes98IV.pdf}
}
```

1997

Benes, B. (1997). Visual Model of Plant Development with Respect to Influence of Light. In D. Thalmann & M. van de Panne (Eds.), Computer Animation and Simulation ’97 (pp. 125–136). Springer Vienna. https://doi.org/10.1007/978-3-7091-6874-5_9

@inproceedings{Benes97CAS,
  author = {Benes, Bedrich},
  editor = {Thalmann, Daniel and van de Panne, Michiel},
  title = {Visual Model of Plant Development with Respect to Influence of Light},
  booktitle = {Computer Animation and Simulation '97},
  year = {1997},
  publisher = {Springer Vienna},
  pages = {125--136},
  isbn = {978-3-7091-6874-5},
  doi = {10.1007/978-3-7091-6874-5_9},
  owner = {Benes97CAS.jpg},
  pdf = {../papers/Benes97CAS.pdf},
  link = {../papers/Benes97CASVIDEO.zip}
}

1996

Benes, B. (1996). An efficient estimation of light in simulation of plant development. In R. Boulic & G. Hégron (Eds.), Computer Animation and Simulation ’96 (pp. 153–165). Springer Vienna. https://doi.org/10.1007/978-3-7091-7486-9_11
```
@inproceedings{Benes96CAS,
  author = {Benes, Bedrich},
  title = {An efficient estimation of light in simulation of plant development},
  year = {1996},
  editor = {Boulic, Ronan and H{\'e}gron, Gerard},
  booktitle = {Computer Animation and Simulation '96},
  publisher = {Springer Vienna},
  pages = {153--165},
  isbn = {978-3-7091-7486-9},
  doi = {10.1007/978-3-7091-7486-9_11},
  owner = {Benes96CAS.jpg},
  pdf = {../papers/Benes96CAS.pdf}
}
```