Peer-Reviewed Publications

  • Bailey, B.N., Ponce de Léon, M.A., and Krayenhoff, E.S. (2020). One-dimensional models of radiation transfer in homogeneous canopies: A review, re-evaluation, and improved model. Geoscientific Model Development. In press, DOI:10.5194/gmd-2019-305 Link to Article
  • Krayenhoff, E.S., Jiang, T., Christen, A., Martilli, A., Oke, T., Bailey, B.N., Nazarin, N., Voogt, J., Giometto, M. Stastny, A., and Crawford, B. (2020). A multi-layer urban canopy meteorological model with trees (BEP-Tree): Street tree impacts on pedestrian-level climate. Urban Climate 32:100590 Link to Article
  • Poirier-Pocovi, M.D., Volder, A. and Bailey, B.N. (2020). Modeling of reference temperatures for calculating crop water stress indices from infrared thermography. Agricultural Water Management 233:106070 Full-Text PDF Link to Article
  • Poirier-Pocovi, M.D. and Bailey, B.N. (2020). Sensitivity analysis of four crop water stress indices to ambient environmental conditions and stomatal conductance. Scientia Horticulturae 259:108825 Full-Text PDF Link to Article
  • Bailey, B.N. (2019). Helios: a scalable 3D plant and environmental biophysical modelling framework. Frontiers in Plant Science 10:1185 Full-Text PDF
  • Ponce de Léon, M.A. and Bailey, B.N. (2019). Evaluating the use of Beer's law for estimating light interception in canopy architectures with varying heterogeneity and anisotropy. Ecological Modelling 406:133-143 Full-Text PDF Link to Article
  • Bailey, B.N. and Ochoa, M.H. (2018). Semi-direct tree reconstruction using terrestrial LiDAR point cloud data. Remote Sensing of Environment 208:133-144 Full-Text PDF Link to Article
  • Bailey, B.N., Stoll, R., and Pardyjak, E.R. (2018). A theoretically consistent framework for modelling Lagrangian particle deposition in plant canopies. Boundary-Layer Meteorology 167:509-520 Full-Text PDF Link to Article
  • Bailey, B.N. (2018). A reverse ray-tracing method for modelling the net radiative flux in leaf-resolving plant canopy simulations. Ecological Modelling 368:233-245 Full-Text PDF Link to Article
  • Girard, P., Nadeau, D., Pardyjak, E.R., Overby, M. Willemsen, P., Stoll, R., Bailey, B.N., and Parlange, M.B. (2018). Evaluation of the QUIC-URB wind solver and QESRadiant radiation-transfer model using a dense array of urban meteorological observations. Urban Climate 24:657-674 Link to Article
  • Bailey, B.N. and Mahaffee, W.F. (2017). Rapid, high-resolution measurement of leaf area and leaf orientation using terrestrial LiDAR scanning data. Meas. Sci. Technol. 28:064006 Full-Text PDF Link to Article
  • Bailey, B.N. and Mahaffee, W.F. (2017). Rapid measurement of the three-dimensional distribution of leaf orientation and the leaf angle probability density function using terrestrial LiDAR scanning. Remote Sens. Env. 193:63-76 Full-Text PDF Link to Article
  • Bailey, B.N. (2017). Numerical considerations for Lagrangian stochastic dispersion models: Eliminating rogue trajectories, and the importance of numerical accuracy. Bound.-Layer Meteorol. 162:43-70 Full-Text PDF Link to Article Supplemental Material
  • Bailey, B.N. and Stoll, R. (2016). The creation and evolution of coherent structures in plant canopy flows and their role in turbulent transport. J. Fluid Mech. 789:425-460 Full-Text PDF Link to Article
  • Bailey, B.N., Stoll, R., Pardyjak, E.R., Miller, N.E. (2016). A new three-dimensional energy balance model for complex plant canopy geometries: Model development and improved validation strategies Agric. For. Meteorol. 218-219:146-160 Full-Text PDF Link to Article
  • Overby, M., Willemsen, P., Bailey, B.N., Halverson, S., and Pardyjak, E.R. (2016). A rapid and scalable radiation transfer model for complex urban domains. Urban Climate 15:25-44 Link to Article
  • Bailey, B.N., Overby, M., Willemsen, P., Pardyjak, E.R., Mahaffee, W.F., and Stoll, R. (2014). A scalable plant-resolving radiative transfer model based on optimized GPU ray tracing. Agric. For. Meteorol. 198-199:192-208 Full-Text PDF Link to Article
  • Bailey, B.N., Stoll, R., Pardyjak, E.R., and Mahaffee, W.F. (2014). The effect of vegetative canopy architecture on vertical transport of massless particles. Atmos. Env. 95:480-489 Full-Text PDF Link to Article
  • Qiu, M., Bailey, B.N., Stoll, R., and Raeymakers, B. (2014). The accuracy of the compressible Reynolds equation for predicting the local pressure in gas-lubricated textured parallel slider bearings. Tribol. Int. 72:83-89 Full-Text PDF Link to Article
  • Bailey, B.N., and Stoll, R. (2013). Turbulence in sparse organized vegetative canopies: A large-eddy simulation study. Bound.-Layer Meteorol. 147:369-400 Full-Text PDF Link to Article
  • Qiu, M., Bailey, B.N., Stoll, R., and Raeymakers, B. (2012). The validity of the compressible Reynolds equation for gas-lubricated textured parallel slider bearings. Proceedings of the ASME/STLE 2012 International Joint Tribology Conference. IJTC2012-61054
  • Popular Press

  • Bailey, B. (2016). Incorporating resolved vegetation in city-scale simulations of urban micrometeorology and its effect on the energy balance. Urban Climate News March, Issue 59, 19-21
  • Mahaffee, W., Schwebs, S., Hand, F., Gubler, D., Bailey, B., and Stoll, R. (2014). Improving management of grape powdery mildew with new tools and knowledge. Practical Winery & Vineyard April, 59-67
  • Conference Presentations

  • Bailey, B.N. American Geophysical Union Fall Meeting (2019). San Francisco, CA. ``What are the impacts of slow stomatal kinetics on control of gas exchange at leaf through ecosystem scales?" (oral presentation).
  • Ponce de Lèon, M.A. and Bailey, B.N. American Geophysical Union Fall Meeting (2019). San Francisco, CA. ``Simple Models of Light Interception in Heterogenous Canopies" (poster presentation).
  • Halubok, M. and Bailey, B.N. American Geophysical Union Fall Meeting (2019). San Francisco, CA. ``Evaluating Beer's law for leaf area density estimation in homogeneous and heterogeneous canopies" (poster presentation).
  • Kent, E.R. and Bailey, B.N. American Geophysical Union Fall Meeting (2019). San Francisco, CA. ``The Role of Averaging Scale in Modeling Non-linear Leaf Level Processes for Canopies using a Three-dimensional Leaf-resolving Model" (oral presentation).
  • Bailey, B.N., and Kent, E.R. Ecological Society of America Annual Meeting (2019). Louisville, KY ``Linking terrestrial LiDAR measurements of leaf-scale canopy structure with a new 3D biophysical modeling framework to explore interactions between structure and function" (oral presentation).
  • Bailey, B.N. Model-IT (2019). Molfetta, Italy. ``A New 3D Modeling Framework for Robust and Efficient Simulation of Perennial Cropping Systems" (keynote talk).
  • Bailey, B.N. CalASA/California Plant and Soil Conference (2019). Fresno, CA. ``Development of the Next Generation of Perennial Crop Modeling Tools" (oral presentation).
  • Bailey, B.N., and Kent, E.R. American Geophysical Union Fall Meeting (2018). Washington D.C. ``Linking a novel 3D leaf-resolving biophysical model with terrestrial LiDAR-based canopy reconstructions to resolve structural heterogeneity from leaves to canopies" (poster presentation).
  • Ponce de Lèon, M.A. and Bailey, B.N. American Geophysical Union Fall Meeting (2018). Washington D.C. ``Evaluating Beer's Law Approach for Light Interception in Diverse Canopy Architectures" (poster presentation).
  • Bailey, B.N., and Ochoa, M. 33rd Conference on Agricultural and Forest Meteorology (2018). Boise, ID ``Direct scaling of biophysical models from leaves to canopies." (oral presentation).
  • Bailey, B.N., Stoll, R, and Pardyjak, E.R. 33rd Conference on Agricultural and Forest Meteorology (2018). Boise, ID ``Recent advances in Lagrangian modeling of dispersion in plant canopies." (oral presentation).
  • Bailey, B.N.. Phenome (2018). Tucson, AZ ``Coupling terrestrial LiDAR measurements of tree architecture with high-resolution biophysical models to provide insights into plant-environment interactions." (oral presentation).
  • Bailey, B.N., Mahaffee, W., and Ochoa, M. American Geophysical Union Fall Meeting (2017). New Orleans, LA ``Direct scaling of leaf-resolving biophysical models from leaves to canopies.'' (oral presentation).
  • Moody, M., Bailey, B.N., and Stoll, R. American Geophysical Union Fall Meeting (2017). New Orleans, LA ``Modeling transport of turbulent fluxes in a heterogeneous urban canopy using a spatially explicit energy balance.'' (oral presentation).
  • Bailey, B.N., Stoll, R. 32nd Conference on Agricultural and Forest Meteorology (2016). Salt Lake City, UT. ``Lagrangian-based visualization techniques for the observation of instantaneous coherent turbulence structures in plant canopy flows.'' (oral presentation).
  • Bailey, B.N., Mahaffee, W.F. 32nd Conference on Agricultural and Forest Meteorology (2016). Salt Lake City, UT. ``Including the effects of leaf orientation in micrometeorological and microclimatological models using terrestrial LiDAR data.'' (oral presentation).
  • Bailey, B.N. 22nd Symposium on Boundary Layers and Turbulence (2016). Salt Lake City, UT. ``Numerical stability and accuracy considerations for the solution of Lagrangian stochastic particle dispersion model equations.'' (poster presentation). PDF
  • Bailey, B.N., Overby, M., Stoll, R., Pardyjak, E.R., Willemsen, P., Briggs, K., and Alexander, D. 9th International Conference on Urban Climate and 12th Symposium on the Urban Environment (2015). Toulouse, France. ``Incorporating resolved vegetation in city-scale simulations of urban micrometeorology and its effect on the energy balance'' (oral presentation). PDF
  • Bailey, B.N., Stoll, R. 9th International Conference on Urban Climate and 12th Symposium on the Urban Environment (2015). Toulouse, France. ``Understanding and eliminating instabilities and 'rogue trajectories' in Lagrangian stochastic particle dispersion models.'' (poster presentation).
  • Willemsen, P., Overby, M., Briggs, K. Bailey, B.N., Alexander, D., Stoll, R., Pardyjak, E.R. 9th International Conference on Urban Climate and 12th Symposium on the Urban Environment (2015). ``Integration of urban microclimate models using the QUIC EnvSim GPU framework.'' (oral presentation).
  • Pardyjak, E.R., Briggs, K., Overby, M., Alexander, D., Bailey, B.N., Stoll, R., Willemsen, P. 9th International Conference on Urban Climate and 12th Symposium on the Urban Environment (2015). Toulouse, France. ``Exploring the impact of alternative urban design scenarios on microclimate using QUIC-EnvSim.'' (poster presentation).
  • Bailey, B.N., Stoll, R., Pardyjak, E.R, Miller, N.E., and Mahaffee, W.F. American Geophysical Union Fall Meeting (2014). San Francisco, CA. ``Improving and validating 3D models for the leaf energy balance in canopy-scale problems with complex geometry'' (poster presentation). PDF
  • Bailey, B.N., and Stoll, R. AMS 21st Symposium on Boundary Layers and Turbulence (2014). Leeds, U.K. ``The Creation and Evolution of Coherent Structures in Canopy Flows'' (oral presentation).
  • Bailey, B.N., and Stoll, R. AMS 21st Symposium on Boundary Layers and Turbulence (2014). Leeds, U.K. ``A Lagrangian Investigation of Momentum and Scalar Transport in Plant Canopies'' (oral presentation).
  • Miller, N. E., Bailey, B.N., Stoll, R., Mahaffee, W. and Pardyjak, E.R. AMS 21st Symposium on Boundary Layers and Turbulence (2014). Leeds, U.K. ``Mean and turbulent flow statistics in a trellised agricultural canopy" (oral presentation).
  • Bailey, B.N., Overby, M., Stoll, R., Willemsen, P., Miller, N.E., Mahaffee, W., and Pardyjak, E.R. 31st Conference on Agricultural and Forest Meteorology (2014). Portland, OR. ``A high-resolution canopy radiation and microclimate model based on GPU technology'' (oral presentation). PDF
  • †Price, T., Stoll, R., Stegmeir, M., Bailey, B.N., Pardyjak, E.R., and Johnson, J. 31st Conference on Agricultural and Forest Meteorology (2014). Portland, OR. ``A wind tunnel study of momentum transport in sparse perennial agricultural canopies" (oral presentation).
  • Overby, M., Halverson, S., Bailey, B.N., Willemsen, P., Stoll, R. and Pardyjak, E.R. NVIDIA GPU Technology Conference (2014). San Jose, CA. ``QUIC EnvSim: Radiative Heat Transfer in Vegetative and Urban Environments with NVIDIA OptiX" (oral presentation).
  • Stoll, R., Pardyjak. E., Bailey, B.N., Alexander, D., Briggs, K.A., Kochanski, A., Steenburgh, J., Harman, T., Willemsen, P. and Overby, M. 92nd American Meteorological Society Annual Meeting and 11th Symposium on the Urban Environment, (2014). Atlanta, GA. ``A building and tree resolving modeling framework for simulating , momentum, energy, pollutant dispersion, and moisture budgets in complex urban canopies over a wide range of spatial scales" (oral presentation).
  • Overby, M., Bailey, B.N., Stoll, R., Willemsen, P. and Pardyjak, E.R. 92\textsuperscript{nd} American Meteorological Society Annual Meeting and 11th Symposium on the Urban Environment, (2014). Atlanta, GA. ``Simulating radiative transport for vegetation in complex urban environments with green infrastructure" (oral presentation).
  • †Overby, M., Bailey, B.N., Stoll, R., Willemsen, P. and Pardyjak, E.R. 98th Ecological Society of America Annual Meeting (2013). Minneapolis, MN. ``A highly scalable modeling framework based on GPU technology for simulating radiative transport in complex urban and plant canopies" (oral presentation).
  • Bailey, B.N., and Stoll, R. American Geophysical Union Fall Meeting (2012). San Francisco, CA. ``Coherent turbulence structure detection in plant canopies using a coupled Eulerian-Lagrangian detection method'' (oral presentation).
  • Qiu, M., Bailey, B.N., Stoll, R. and Raeymaekers, B. ASME/STLE 2012 International Joint Tribology Conference (2012). Denver, CO. "The validity of the compressible Reynolds equation for gas lubricated textured parallel slider bearings" (oral presentation).
  • Bailey, B.N., and Stoll, R. 30th Conference on Agricultural and Forest Meteorology (2012). Boston, MA. ``The link between coherent structures and particle transport in canopy flows'' (oral presentation).
  • Bailey, B.N., and Stoll, R. American Geophysical Union Fall Meeting (2011). San Francisco, CA. ``Turbulent transport in sparse, agricultural canopies'' (poster presentation). PDF
  • Bailey, B.N., and Stoll, R. 29th Conference on Agricultural and Forest Meteorology (2010). Keystone, CO. ``The impact of canopy geometry on particle dispersion gradients in sparse agricultural canopies'' (oral presentation).
  • †presentation award winner
    Department of Plant Sciences
    One Shields Ave.
    Davis, CA 95616