Showing 33 members in total
Brice Xavier Semmens
I work primarily on issues in spatial ecology, community assembly, and population viability â€“ all under a conservation biological umbrella.
University of Idaho graduate student in the Waters of the West program
Elizabeth Eli Holmes
I am an applied population biologist. I work mainly on methods for population viability analysis and on analysis of multivariate autoregressive state-space models in ecological applications. Main projects:
- LAMBDA: MAR-1 analysis of community data vis-a-vis Ives et al 2003. (developers Steve Viscido and Eli Holmes)
- Kalman-EM: Estimation of constrained and unconstrained multivariate autoregressive state-space models via a Kalman filter and smoother plus EM algorithm. (developers Eli Holmes and Eric Ward)
- MARSS: Our R package that replaces Kalman-EM. Fully documented with help files and has a manual. Version 3.0 (in 2011) will provide Bayesian and data-cloning methods. (developed by Eli Holmes, Eric Ward, and Kellie Wills)
- DARTER: Diffusion Approximation Tools for Extinction Risk Estimation. An Excel program that computes a Bayesian posterior for some PVA metrics using a Kalman filter + SIR search (developed by Brice Semmens and Eli Holmes)
- Data-cloning: Data-cloning (vis-a-vis Lele et al., 2007, Ecology Letters) for ML estimation for MARSS models. Uses OpenBugs (developed by Eric Ward). Simpler code for univariate case is here: Data-cloning I.
My papers can be found on my website: http://faculty.washington.edu/eeholmes
I currently work at the Northwest Fisheries Science Center (NOAA) in Seattle. I'm a quantitative ecologist, and am interested in a range of problems (population dynamics, extinction risk, conservation genetics, reproductive success). My recent modeling specific interests have been pursuing applications of mixture distributions, state-space models, hierarchical models, multilevel random effects models, and Bayesian model selection techniques. I'm particularly interested in using hierarchical models with variation at multiple levels (individuals, groups).
Developer - Do Not Feed
Northwest Fisheries Science Center, National Marine Fisheries Service, Seattle, Washington
I spend most of my time making the other people on this site miserable through my endless requests for code, their time, etc. It's impressive that they continue to collaborate with me.
Mark studies how natural processes and anthropogenic factors interact to drive ecological dynamics. Much of his research focuses on the effects of climate variability and human activities on Pacific salmon populations and the aquatic ecosystems they inhabit. Mark has been with the NWFSC since 2003 and is also an affiliate assistant professor in the School of Aquatic and Fisheries Sciences at the University of Washington. Mark holds a B.S. in Zoology from the University of Wisconsin, an M.S. in Fisheries and Aquatic Sciences from Cornell University, and a Ph.D. in Zoology from the University of Washington.Mark uses a combination of simulation and statistical modeling approaches to investigate the spatial and temporal dynamics of aquatic ecosystems.