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Spatial Extents and Response Curves in Species Analysis Workshop

Learn to analyze species data in different countries using response curves and spatial extents. Hands-on exercises cover variables, model predictions, and evaluating cutoff values. Enhance your skills with R programming and explore species vs. communities dynamics.

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Spatial Extents and Response Curves in Species Analysis Workshop

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  1. Field trip 24 February 2005 Departs 0915 from Town Lodge

  2. Exercise outline • Extents • Variables • Response curves • Region vs species

  3. Ex1 • Country specific • Load amd.prac1.dbf, add event theme • Load countries.shp • Select country • Theme -> Select by theme, export points within selected country to dbf file. • Switch to R

  4. Ex 1 (R) • R background: why R? (incl on CD, user base, support, FREE) • Package -> Load packages. • Select MASS, somers2 and mgcv libraries • Open AIACCfunctions.R • Cntrl-A to select all, then press Run button • Loads functions needed • Open -> AIACCscript.R

  5. Ex1 (R)…2 • Explanation of script (on screen)

  6. Select country specific species (species number in column of dbf file) • RSA: 215, 213, 117, 229 • DRC/Zaire/Congo: 106, 305 • Kenya: 135, 166, 182, 242 • Mozambique: 182, 349 • Tanzania 156, 182, 336, 244 • Burundi: 069 • Namibia: 136, 317, 348 • Zimbabwe: 348, 219 • Zambia: 342, • Uganda: 233 • Malawi: 155, 108 • Botswana: 130, 090 • ALL; 161, 145, 99, 70

  7. How to run script • On-screen demo: select and run relevant parts of script • Edit where needed • Start with 1 variable, run model. • Plot response curve • Predictions and evaluations (Evaluation output interpretation using AUC value; if model ok, then estimate cutoff) • Do binary transformation (apply cut-off to prob surface) • Export to dbf, and open in AV. • Create event theme, view results. • Save script with new name before step10. • Repeat steps 3 to 8 with 3 and 5 variables. • ID best model • Apply model to CC data.

  8. Ex2 • Use best model and repeat for different spatial extents.

  9. Panel discussion • Species vs communities • 3 tiers: biome-equilibrium state species-dynamic state species • Biome level analysis is first pass solution • Non-unique climate space (no discreet boundaries) • No coherent community shifts (time and space)

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