Scott C Merrill
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Course:
Quantitative Thinking in the Life Sciences
Fall 2012: PSS 381

Course description:

The goal of this course is to build a quantitative foundation to help develop tools to think about and analyze your specific project in the life sciences. We will focus on learning fundamental principles to assure a solid background that will help in sampling design and analysis, as well as provide the building blocks for further quantitative study. This course will concentrate on thinking about your project, the questions driving your system, and the data that will be needed to answer your scientific questions. Additionally, you will learn techniques for using models to gain insight from your data.


Scheduling Note: On September 19th, class will meet in Jeffords 326 instead of Jeffords 234.


Syllabus

Course Schedule

N.T. Hobbs (2012)  An Ecological Modeler's Primer on R

Assignments and some solutions


R tutorial chapters


Lecture and lecture notes

Assignment # 1: Student introductions and R tutorial

Assignment # 2: Developing a concept map

Assignment # 3:
Probability experiment


Assignment # 4:
Distributions and relationships for your concept map


Assignment # 5:
Measurement error for components in your concept map


Fire example solution plus notes

Assignment A:
Data distributions for  components from your concept map


Assignment B:
Data simulation using data distributions from your concept map


Assignment C:
Chapter 8 R code. Modeling Elk populations in Rocky Mountain National Park


Hobb's RMNP Elk Data

Assignment D: Simulated data matrix and testing using code from your book

Final Project Notes

Supplemental course evaluation
Chapter 1: An Introduction to R

Chapter 2:
September 5th Lecture slides

September 12th Lecture slides

September 19th Lecture slides

September 19th
R code


September 26th Lecture slides


October 3rd  Lecture slides

October 10th Lecture slides

October 17th Lecture slides

October 24th Lecture slides

October 31st Lecture slides

November 7th Lecture Slides

November 28th Lecture Slides

December 5th Lecture Slides















Course:
Ecological Gaming
Spring 2013: HCOL 185, CRN TBA

Course description:

Ecological gaming will examine ecology through the lens of a computer simulation game. The overarching goal of this course is to instill a foundation of ecological concepts by breaking down ecological complexity into simple, digestible pieces. We start by building a simple (virtual) environment (our gaming platform) and slowly add complexity by adding virtual species to the ecosystem and observing their population’s development and behavior. As a class, we will build spatially-explicit abiotic environments. These simple environments will be used for the foundation of an ecosystem with the environment subdivided into habitat categories (e.g., good habitat versus poor habitat, or forests versus deserts), which will allow a discussion of some of the essential building blocks of life and life strategies. After our virtual environments have been built, we will examine single population dynamics (resource needs, fecundity strategies, growth rates, lifespan, phenology, reproduction type, dispersal, movement and behavior, within-species competition and density-dependence). The course will continue by looking at species interactions (e.g., competition, mutualism, predation, trophic levels, trophic cascades, food webs). Finally, ecosystem level biocomplexity will be examined by looking at how ecosystem components could influence evolution, ecosystem stability and chaos.