| 2023 | "Restoration pulse flows from a California dam temporarily increase drifting invertebrate biomass concentration" in Journal of Environmental Management |
| 2023 | "Calibration of the Trinity River Stream Salmonid Simulator (S3) with Extension to the Klamath River, California, 2006–17" in US Geological Survey Open-File Report |
| 2023 | "A life cycle model for evaluating estuary residency and recovery potential in Chinook salmon" in Fisheries Research |
| 2023 | "Deconstructing dams and disease: predictions for salmon disease risk following Klamath River dam removals" in Frontiers in Ecology and Evolution |
| 2022 | "From site to system: Approaches for producing system-wide estimates of fish habitat in large rivers" in River Research and Applications |
| 2022 | "Using a mechanistic framework to model the density of an aquatic parasite Ceratonova shasta" in PeerJ |
| 2022 | "The mechanics of diurnal thermal stratification in river pools: Implications for water management and species conservation" in Hydrological Processes |
| 2021 | "Evaluating Alternative Hierarchical Modeling Approaches for the Estimation of Salmonid Smolt Abundance" in North American Journal of Fisheries Management |
| 2021 | "Reducing River Flows to Control a Parasitic Salmonid Disease in the Klamath River: Simulations Question the Efficacy of Desiccation as a Management Tool" in North American Journal of Fisheries Management |
| 2020 | “Prevalence Of Infection In Hatchery‐Origin Chinook Salmon Correlates With Abundance Of Ceratonova Shasta Spores: Implications For Management And Disease Risk” in North American Journal of Fisheries Management |
| 2020 | "SSNdesign—An R package for pseudo-Bayesian optimal and adaptive sampling designs on stream networks" in PLOS ONE |
| 2020 | "Disease in Central Valley Salmon: Status and Lessons from Other Systems" in San Francisco Estuary and Watershed Science |
| 2019 | "Changes in adult Chinook salmon (Oncorhynchus tshawytscha) survival within the lower Columbia River amid increasing pinniped abundance" in Canadian Journal of Fisheries and Aquatic Sciences |
| 2018 | "Increasing the availability and spatial variation of spawning habitats through ascending baseflows" in River Research and Applications |
| 2017 | "N-mix for fish: estimating riverine salmonid habitat selection via N-mixture models" in Canadian Journal of Fisheries and Aquatic Sciences |
| 2017 | "A laboratory-calibrated model of coho salmon growth with utility for ecological analyses" in Canadian Journal of Aquatic Sciences |
| 2016 | "Habitat Suitability Criteria via Parametric Distributions: Estimation, Model Selection and Uncertainty" in River Research and Applications |
| 2016 | "Integrating models to predict distribution of the invertebrate host of myxosporean parasites" in Freshwater Science |
| 2016 | "Improving Hydrodynamic Modelling: an Analytical Framework for Assessment of Two-Dimensional Hydrodynamic Models" in River Research and Applications |
| 2015 | "The punctuated seaward migration of Pacific Lamprey (Entosphenus tridentatus): environmental cues and implications for streamflow management" in Canadian Journal of Fisheries and Aquatic Sciences |
| 2014 | "Using Cure Models for Analyzing the Influence of Pathogens on Salmon Survival" in Transactions of the American Fisheries Society |
| 2014 | "Spatial sampling on streams: principles for inference on aquatic networks" in Environmetrics |
| 2014 | "A mapping technique to evaluate age-0 salmon habitat response from restoration" in Restoration Ecology |
| 2014 | "Applications of spatial statistical network models to stream data" in Wiley Interdisciplinary Reviews: Water |
| 2013 | "Flow variation and substrate type affect dislodgement of the freshwater polychaete, Manayunkia speciosa" in Freshwater Science |
| 2013 | "Probabilistic accounting of uncertainty in forecasts of species distributions under climate change" in Global Change Biology |
| 2013 | "Modelling dendritic ecological networks in space: an integrated network perspective" in Ecology Letters |
| 2012 | "Corrected prediction intervals for change detection in paired watershed studies" in Hydrological Sciences Journal |
| 2010 | "In lieu of the paired catchment approach: Hydrologic model change detection at the catchment scale" in Water Resources Research |
| 2010 | "Detecting the effects of forest harvesting on streamflow using hydrologic model change detection" in Conference Proceedings of the 17th Central Hardwoods Forest Conference |
| 2009 | "Comment on “Methods to account for spatial autocorrelation in the analysis of species distributional data: a review"" in Ecography |
