Steven R. Beissinger, Sarah A. MacLean, Kelly J. Iknayan, Perry de Valpine (2023). Concordant and opposing effects of climate and land-use change on avian assemblages in California’s most transformed landscapes. Science Advances.

Cite DOI URL

Wei Zhang, Joseph D. Chipperfield, Janine B. Illian, Pierre Dupont, Cyril Milleret, Perry de Valpine, Richard Bischof (2023). A flexible and efficient Bayesian implementation of point process models for spatial capture–recapture data. Ecology.

Cite DOI URL

Cyril Milleret, Soumen Dey, Pierre Dupont, Henrik Brøseth, Daniel Turek, Perry de Valpine, Richard Bischof (2023). Estimating spatially variable and density-dependent survival using open-population spatial capture–recapture models. Ecology.

Cite DOI URL

Sally Paganin, Christopher J. Paciorek, Claudia Wehrhahn, Abel Rodríguez, Sophia Rabe-Hesketh, Perry de Valpine (2022). Computational Strategies and Estimation Performance With Bayesian Semiparametric Item Response Theory Models. Journal of Educational and Behavioral Statistics.

Cite DOI URL

Benjamin R. Goldstein, Perry de Valpine (2022). Comparing N-mixture models and GLMMs for relative abundance estimation in a citizen science dataset. Scientific Reports.

Cite DOI URL

Jacob I Levine, Brandon M Collins, Zachary L Steel, Perry de Valpine, Scott L Stephens (2022). Higher incidence of high-severity fire in and near industrially managed forests. Frontiers in Ecology and the Environment.

Cite DOI URL

Ken Newman, Ruth King, Víctor Elvira, Perry de Valpine, Rachel S. McCrea, Byron J. T. Morgan (2022). State-space models for ecological time-series data: Practical model-fitting. Methods in Ecology and Evolution.

Cite DOI URL

Johnny Hong, Ulas Karaoz, Perry de Valpine, William Fithian (2022). To rarefy or not to rarefy: robustness and efficiency trade-offs of rarefying microbiome data. Bioinformatics.

Cite DOI URL

Sara Stoudt, Benjamin R. Goldstein, Perry de Valpine (2022). Identifying engaging bird species and traits with community science observations. Proceedings of the National Academy of Sciences.

Cite DOI URL

Harlan Campbell, Perry de Valpine, Lauren Maxwell, Valentijn M. T. de Jong, Thomas P. A. Debray, Thomas Jaenisch, Paul Gustafson (2022). Bayesian adjustment for preferential testing in estimating infection fatality rates, as motivated by the COVID-19 pandemic. The Annals of Applied Statistics.

Cite DOI URL

Yik Leung Fung, Ken Newman, Ruth King, Perry de Valpine (2022). Building integral projection models with nonindependent vital rates. Ecology and Evolution.

Cite DOI URL

Perry de Valpine, Sally Paganin, Daniel Turek (2022). compareMCMCs: An R package for studying MCMC efficiency. Journal of Open Source Software.

Cite DOI URL

Marcus W. Beck, Perry de Valpine, Rebecca Murphy, Ian Wren, Ariella Chelsky, Melissa Foley, David B. Senn (2022). Multi-scale trend analysis of water quality using error propagation of generalized additive models. Science of The Total Environment.

Cite DOI URL

Nicholas Michaud, Perry de Valpine, Daniel Turek, Christopher J. Paciorek, Dao Nguyen (2021). Sequential Monte Carlo Methods in the nimble and nimbleSMC R Packages. Journal of Statistical Software.

Cite DOI URL

Yvonne Socolar, Benjamin R. Goldstein, Perry de Valpine, Timothy M. Bowles (2021). Biophysical and policy factors predict simplified crop rotations in the US Midwest. Environmental Research Letters.

Cite DOI URL

Jacob Levine, Perry de Valpine, John Battles (2021). Generalized additive models reveal among-stand variation in live tree biomass equations. Canadian Journal of Forest Research.

Cite DOI URL

Daniel Turek, Cyril Milleret, Torbjørn Ergon, Henrik Brøseth, Pierre Dupont, Richard Bischof, Perry de Valpine (2021). Efficient estimation of large-scale spatial capture–recapture models. Ecosphere.

Cite DOI URL

Richard Bischof, Cyril Milleret, Pierre Dupont, Joseph Chipperfield, Mahdieh Tourani, Andrés Ordiz, Perry de Valpine, Daniel Turek, J. Andrew Royle, Olivier Gimenez, Øystein Flagstad, Mikael Åkesson, Linn Svensson, Henrik Brøseth, Jonas Kindberg (2020). Estimating and forecasting spatial population dynamics of apex predators using transnational genetic monitoring. Proceedings of the National Academy of Sciences.

Cite DOI URL

Dao Nguyen, Perry de Valpine, Yves Atchade, Daniel Turek, Nicholas Michaud, Christopher Paciorek (2020). Nested Adaptation of MCMC Algorithms. Bayesian Analysis.

Cite DOI URL

Cyril Milleret, Pierre Dupont, Joseph Chipperfield, Daniel Turek, Henrik Brøseth, Olivier Gimenez, Perry de Valpine, Richard Bischof (2020). Estimating abundance with interruptions in data collection using open population spatial capture–recapture models. Ecosphere.

Cite DOI URL

Lauren C. Ponisio, Perry de Valpine, Nicholas Michaud, Daniel Turek (2020). One size does not fit all: Customizing MCMC methods for hierarchical models using NIMBLE. Ecology and Evolution.

Cite DOI URL

Marti J. Anderson, Perry de Valpine, Andrew Punnett, Arden E. Miller (2019). A pathway for multivariate analysis of ecological communities using copulas. Ecology and Evolution.

Cite DOI URL

Lauren C. Ponisio, Perry de Valpine, Leithen K. M'Gonigle, Claire Kremen (2019). Proximity of restored hedgerows interacts with local floral diversity and species' traits to shape long-term pollinator metacommunity dynamics. Ecology Letters.

Cite DOI URL

Eric R. Dougherty, Perry de Valpine, Colin J. Carlson, Jason K. Blackburn, Wayne M. Getz (2018). Commentary to: a cross-validation-based approach for delimiting reliable home range estimates. Movement Ecology.

Cite DOI URL

Diego Salazar, John Lokvam, Italo Mesones, Magno Vásquez Pilco, Jacqueline Milagros Ayarza Zuñiga, Perry de Valpine, Paul V. A. Fine (2018). Origin and maintenance of chemical diversity in a species-rich tropical tree lineage. Nature Ecology & Evolution.

Cite DOI URL

Sarah A. MacLean, Andrea F. Rios Dominguez, Perry de Valpine, Steven R. Beissinger (2018). A century of climate and land-use change cause species turnover without loss of beta diversity in California’s Central Valley. Global Change Biology.

Cite DOI URL

Daniel Turek, Perry de Valpine, Christopher J. Paciorek, Clifford Anderson-Bergman (2017). Automated Parameter Blocking for Efficient Markov Chain Monte Carlo Sampling. Bayesian Analysis.

Cite DOI URL

Perry de Valpine, Daniel Turek, Christopher J. Paciorek, Clifford Anderson-Bergman, Duncan Temple Lang, Rastislav Bodik (2017). Programming With Models: Writing Statistical Algorithms for General Model Structures With NIMBLE. Journal of Computational and Graphical Statistics.

Cite DOI URL

Alexandra N. Harmon-Threatt, Perry de Valpine, Claire Kremen (2017). Estimating resource preferences of a native bumblebee: the effects of availability and use–availability models on preference estimates. Oikos.

Cite DOI URL

Luke O. Frishkoff, Perry de Valpine, Leithen K. M'Gonigle (2017). Phylogenetic occupancy models integrate imperfect detection and phylogenetic signal to analyze community structure. Ecology.

Cite DOI URL

Lara M. Kueppers, Erin Conlisk, Cristina Castanha, Andrew B. Moyes, Matthew J. Germino, Perry de Valpine, Margaret S. Torn, Jeffry B. Mitton (2017). Warming and provenance limit tree recruitment across and beyond the elevation range of subalpine forest. Global Change Biology.

Cite DOI URL

Daniel Turek, Perry de Valpine, Christopher J. Paciorek (2016). Efficient Markov chain Monte Carlo sampling for hierarchical hidden Markov models. Environmental and Ecological Statistics.

Cite DOI URL

M. V. Eitzel, Maggi Kelly, Iryna Dronova, Yana Valachovic, Lenya Quinn-Davidson, Jon Solera, Perry de Valpine (2016). Challenges and opportunities in synthesizing historical geospatial data using statistical models. Ecological Informatics.

Cite DOI URL

Erin E. Nuccio, James Anderson-Furgeson, Katerina Y. Estera, Jennifer Pett-Ridge, Perry de Valpine, Eoin L. Brodie, Mary K. Firestone (2016). Climate and edaphic controllers influence rhizosphere community assembly for a wild annual grass. Ecology.

Cite DOI URL

Jonas Knape, Perry de Valpine (2016). Monte Carlo estimation of stage structured development from cohort data. Ecology.

Cite DOI URL

Perry de Valpine, Jonas Knape (2015). Estimation of General Multistage Models From Cohort Data. Journal of Agricultural, Biological, and Environmental Statistics.

Cite DOI URL

M. V. Eitzel, J. Battles, R. York, P. de Valpine (2015). Can't see the trees for the forest: complex factors influence tree survival in a temperate second growth forest. Ecosphere.

Cite DOI URL

Lauren C. Ponisio, Leithen K. M'Gonigle, Kevi C. Mace, Jenny Palomino, Perry de Valpine, Claire Kremen (2015). Diversification practices reduce organic to conventional yield gap. Proceedings of the Royal Society B: Biological Sciences.

Cite DOI URL

Olivier Gimenez, Stephen T. Buckland, Byron J. T. Morgan, Nicolas Bez, Sophie Bertrand, Rémi Choquet, Stéphane Dray, Marie-Pierre Etienne, Rachel Fewster, Frédéric Gosselin, Bastien Mérigot, Pascal Monestiez, Juan M. Morales, Frédéric Mortier, François Munoz, Otso Ovaskainen, Sandrine Pavoine, Roger Pradel, Frank M. Schurr, Len Thomas, Wilfried Thuiller, Verena Trenkel, Perry de Valpine, Eric Rexstad (2014). Statistical ecology comes of age. Biology Letters.

Cite DOI URL

Katherine Scranton, Jonas Knape, Perry de Valpine (2014). An approximate Bayesian computation approach to parameter estimation in a stochastic stage-structured population model. Ecology.

Cite DOI URL

Jonas Knape, Kent M. Daane, Perry de Valpine (2014). Estimation of stage duration distributions and mortality under repeated cohort censuses. Biometrics.

Cite DOI URL

Viorel D. Popescu, Perry de Valpine, Rick A. Sweitzer (2014). Testing the consistency of wildlife data types before combining them: the case of camera traps and telemetry. Ecology and Evolution.

Cite DOI URL

Perry de Valpine (2014). The common sense of P values. Ecology.

Cite URL

Perry de Valpine, Katherine Scranton, Jonas Knape, Karthik Ram, Nicholas J. Mills (2014). The importance of individual developmental variation in stage-structured population models. Ecology Letters.

Cite DOI URL

Rebecca Chaplin-Kramer, Perry de Valpine, Nicholas J. Mills, Claire Kremen (2013). Detecting pest control services across spatial and temporal scales. Agriculture, Ecosystems & Environment.

Cite DOI URL

Katherine Scranton, Menelaos Stavrinides, Nicholas J. Mills, Perry de Valpine (2013). Small-Scale Intraspecific Life History Variation in Herbivorous Spider Mites (Tetranychus pacificus) Is Associated with Host Plant Cultivar. PLOS ONE.

Cite DOI URL

Melissa Eitzel, John Battles, Robert York, Jonas Knape, Perry de Valpine (2013). Estimating tree growth from complex forest monitoring data. Ecological Applications.

Cite DOI URL

Perry de Valpine, Alexandra N. Harmon-Threatt (2013). General models for resource use or other compositional count data using the Dirichlet-multinomial distribution. Ecology.

Cite DOI URL

Benjamin M. Bolker, Beth Gardner, Mark Maunder, Casper W. Berg, Mollie Brooks, Liza Comita, Elizabeth Crone, Sarah Cubaynes, Trevor Davies, Perry de Valpine, Jessica Ford, Olivier Gimenez, Marc Kéry, Eun Jung Kim, Cleridy Lennert-Cody, Arni Magnusson, Steve Martell, John Nash, Anders Nielsen, Jim Regetz, Hans Skaug, Elise Zipkin (2013). Strategies for fitting nonlinear ecological models in R, AD Model Builder, and BUGS. Methods in Ecology and Evolution.

Cite DOI URL

Jonas Knape, Panagiotis Besbeas, Perry de Valpine (2013). Using uncertainty estimates in analyses of population time series. Ecology.

Cite DOI URL

Perry de Valpine (2012). Model Fitting. Model Fitting.

Cite DOI URL

Perry de Valpine (2012). Frequentist analysis of hierarchical models for population dynamics and demographic data. Journal of Ornithology.

Cite DOI URL

Jonas Knape, Perry de Valpine (2012). Are patterns of density dependence in the Global Population Dynamics Database driven by uncertainty about population abundance?. Ecology Letters.

Cite DOI URL

Viorel D. Popescu, Perry de Valpine, Douglas Tempel, M. Zachariah Peery (2012). Estimating population impacts via dynamic occupancy analysis of Before–After Control–Impact studies. Ecological Applications.

Cite DOI URL

Jonas Knape, Perry de Valpine (2012). Fitting complex population models by combining particle filters with Markov chain Monte Carlo. Ecology.

Cite DOI URL

Jonas Knape, Perry de Valpine (2011). Effects of weather and climate on the dynamics of animal population time series. Proceedings of the Royal Society B: Biological Sciences.

Cite DOI URL

Benjamin B. Risk, Perry de Valpine, Steven R. Beissinger (2011). A robust-design formulation of the incidence function model of metapopulation dynamics applied to two species of rails. Ecology.

Cite DOI URL

Jonathan C. B. Nesmith, Kevin L. O’Hara, Phillip J. van Mantgem, Perry de Valpine (2010). The Effects of Raking on Sugar Pine Mortality following Prescribed Fire in Sequoia and Kings Canyon National Parks, California, USA. Fire Ecology.

Cite DOI URL

Thomas E. Ingersoll, Kirk W. Navo, Perry de Valpine (2010). Microclimate preferences during swarming and hibernation in the Townsend's big-eared bat, Corynorhinus townsendii. Journal of Mammalogy.

Cite DOI URL

Richard Karban, Perry de Valpine (2010). Population dynamics of an Arctiid caterpillar–tachinid parasitoid system using state-space models. Journal of Animal Ecology.

Cite DOI URL

Perry de Valpine, Katherine Scranton, Clifford P. Ohmart (2010). Synchrony of population dynamics of two vineyard arthropods occurs at multiple spatial and temporal scales. Ecological Applications.

Cite DOI URL

Perry de Valpine, Hans-Marcus Bitter, Michael P. S. Brown, Jonathan Heller (2009). A simulation–approximation approach to sample size planning for high-dimensional classification studies. Biostatistics.

Cite DOI URL

Max A. Moritz, Tadashi J. Moody, Lori J. Miles, Matthew M. Smith, Perry de Valpine (2009). The fire frequency analysis branch of the pyrostatistics tree: sampling decisions and censoring in fire interval data. Environmental and Ecological Statistics.

Cite DOI URL

Leo Polansky, Perry de Valpine, James O. Lloyd-Smith, Wayne M. Getz (2009). Likelihood ridges and multimodality in population growth rate models. Ecology.

Cite DOI URL

Perry de Valpine (2009). Stochastic development in biologically structured population models. Ecology.

Cite DOI URL

Leo Polansky, Perry de Valpine, James O. Lloyd-Smith, Wayne M. Getz (2008). Parameter estimation in a generalized discrete-time model of density dependence. Theoretical Ecology.

Cite DOI URL

Perry de Valpine, John M. Eadie (2008). Conspecific Brood Parasitism and Population Dynamics.. The American Naturalist.

Cite DOI URL

Perry de Valpine (2008). Improved Estimation of Normalizing Constants From Markov Chain Monte Carlo Output. Journal of Computational and Graphical Statistics.

Cite DOI URL

Perry de Valpine, Jay A. Rosenheim (2008). Field-Scale Roles of Density, Temperature, Nitrogen, and Predation on Aphid Population Dynamics. Ecology.

Cite DOI URL

Perry de Valpine, Kim Cuddington, Martha F. Hoopes, Julie L. Lockwood (2008). Is Spread of Invasive Species Regulated? Using Ecological Theory to Interpret Statistical Analysis. Ecology.

Cite DOI URL

Lynn S. Adler, Perry de Valpine, John Harte, Jessica Call (2007). Effects of Long-term Experimental Warming on Aphid Density in the Field. Journal of the Kansas Entomological Society.

Cite DOI URL

Perry de Valpine, Ray Hilborn (2005). State-space likelihoods for nonlinear fisheries time-series. Canadian Journal of Fisheries and Aquatic Sciences.

Cite DOI URL

Perry de Valpine (2004). Monte Carlo State-Space Likelihoods by Weighted Posterior Kernel Density Estimation. Journal of the American Statistical Association.

Cite DOI URL

Perry de Valpine (2003). Better Inferences from Population-Dynamics Experiments Using Monte Carlo State-Space Likelihood Methods. Ecology.

Cite DOI URL

Perry de Valpine (2002). Review of Methods for Fitting Time-Series Models with Process and Observation Error and Likelihood Calculations for Nonlinear, Non-gaussian State-Space Models. Bulletin of Marine Science.

Cite

Perry de Valpine, Alan Hastings (2002). Fitting Population Models Incorporating Process Noise and Observation Error. Ecological Monographs.

Cite DOI URL

Perry de Valpine, John Harte (2001). Plant Responses to Experimental Warming in a Montane Meadow. Ecology.

Cite DOI URL

P. de Valpine (2000). A new demographic function maximized by life-history evolution. Proceedings of the Royal Society Biological Sciences Series B.

Cite

Randal D. Koster, D. Perry de Valpine, Jean Jouzel (1993). Continental water recycling and H218O concentrations. Geophysical Research Letters.

Cite DOI URL