SDM Workshops
“A Hands-on Short Course in Species Distribution Modeling Using R: From Start to Finish”
Niche modeling materials for the workshop “Methods for inferring biogeographic history from distinct lines of evidence: genetic, environmental niche, and fossil” at the meeting of the International Biogeography Society, Quito, Ecuador, August 2019.
Mini tutorial (~30 minutes)
All files (~15 MB, last updated 4 August 2019)
Extended tutorial (~1-2 days)
All materials including data files and tutorials (also available below) (183 MB – last updated 3 August 2019)
- Exercise 00 Getting Started in R
- Exercise 01 Obtaining and Cleaning Biodiversity Data
- Exercise 02 Choosing a Study Region
- Exercise 03 Obtaining and Formatting Environmental Variables
- Exercise 04 Clipping Environmental Rasters to the Study Region
- Exercise 05 Match Records to Environment and Scrutinize for Outliers
- Exercise 06 Predictors: Automated vs Thoughtful Selection
- Exercise 07 Maxent
- Exercise 08 Bias Correction
- Exercise 09 Model Tuning
- Exercise 10 Model Evaluation: Metrics
- Exercise 11 Model Evaluation: Cross-Validation
- Exercise 12 Projecting to Different Time Periods or Regions
- Exercise 13 Niche versus Distribution Modeling
- Exercise 14 Other Algorithms
Past workshops
Ecological Society of America, August 2018
Society for Conservation Biology, July 2016
Wichita State University, May, 2016
Kansas State University, February, 2016
Kansas State University, 2012
Missouri Botanical Garden, 2012
Society for Conservation Biology, 2012
- Presentation (pdf, 17 MB)
- Exercise III: “Giving Grinnell a Computer” (link to website)
“The Species-area Relationship (SAR) in Conservation Biology” Lecture in Stan Braude’s conservation biology course, Washington University in St. Louis, 2011 and 2012.
- Handout (pdf)