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--- 2017:courses:kraenkel:spatial_ecology [2017/01/16 13:49] – created prado
+++ 2017:courses:kraenkel:spatial_ecology [2024/01/09 18:45] (current) – external edit 127.0.0.1
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 ====== Spatial Ecology - additional resources ======
-===== Handouts =====
+===== Lecture =====
-  * soon
+  * [[http://200.145.112.249/webcast/files/lecture_5_17.pdf|Handout]]
+  * [[http://200.145.112.249/webcast/20170120a|Video 1]]
+  * [[http://200.145.112.249/webcast/20170120b|Video 2]]
+===== Resources in the Web =====
-===== Tutorial =====
-Sample notebook on integrating numerically the Fisher-Kolmogorov equation in 1 dimension:
-[[http://nbviewer.ipython.org/github/diogro/ode_examples/blob/master/The%20Fisher-Kolmogorov%20equation.ipynb?create=1|The Fisher-Kolmogorov equation]],
+  * [[http://nbviewer.ipython.org/github/diogro/ode_examples/blob/master/The%20Fisher-Kolmogorov%20equation.ipynb?create=1|Sample notebook on integrating numerically the Fisher-Kolmogorov equation in 1 dimension]],
+  * [[https://ocw.mit.edu/resources/res-tll-004-stem-concept-videos-fall-2013/videos/probability-and-statistics/diffusion-and-ficks-law/|Diffusion and Fick's Law]], a nice introductory video from the [[https://ocw.mit.edu/resources/res-tll-004-stem-concept-videos-fall-2013|Stem concept videos]] from MIT and STUD.
+  * [[https://ocw.mit.edu/courses/mathematics/18-366-random-walks-and-diffusion-fall-2006/index.htm|MIT course on random walks and diffusion]]
 ===== Read more =====
-  * J.D. Murray: Mathematical Biology I e II (Springer, 2002)
+  * J.D. Murray: Mathematical Biology I & II (Springer, 2002)
   * N.F. Britton: Essential Mathematical Biology ( Springer, 2003).
-  * R.S. Cantrell e C. Cosner: Spatial Ecology via Reaction-Diffusion Equations (Wiley, 2003).
+  * R.S. Cantrell & C. Cosner: Spatial Ecology via Reaction-Diffusion Equations (Wiley, 2003).
-  * A. Okubo e S.A. Levin: Diffusion and Ecological Problems (Springer, 2001).
+  * A. Okubo & S.A. Levin: Diffusion and Ecological Problems (Springer, 2001).
   * P. Turchin: Quantitative Analysis of Movement (Sinauer, 1998)
+  * Skellam, J.G., 1951. Random dispersal in theoretical populations. Biometrika, 38: 196-218.
+  * [[http://ecologia.ib.usp.br/ssmb/doku.php?id=2014:courses:ovaskainen:start|Spatial Ecology and Evolution]], course held at the [[http://www.ictp-saifr.org/?page_id=4634|III Southern Summer School on Mathematical Biology]]
+====Pattern formation by reaction-diffusion====
+  * {{http://www.karlsims.com/rd.html|Reaction-diffusion tutorial}}: nice introduction with videos
+  * {{http://mrob.com/pub/comp/xmorphia|Gray-Scott model}}: great site with codes, theory and results of a simple chemical reaction-diffusion that generates very complicated patterns. Also links to relevant papers on pattern generation by reaction-diffusion equations.
 ====Cases====
   * [[http://link.springer.com/article/10.1016/j.bulm.2005.01.003|Diffusion and home range parameters from rodent population measurements in Panama]]. Giuggioli et al. (2005). Bulletin of Mathematical Biology.
-==== Wigner on unreasonable efectiveness of math ====
+  * Fonseca CR, Coutinho RM, Azevedo F, Berbert JM, Corso G, Kraenkel RA (2013) Modeling Habitat Split: Landscape and Life History Traits Determine Amphibian Extinction Thresholds. [[http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0066806|PLoS ONE 8(6): e66806.]]
-  * [[https://dtrinkle.matse.illinois.edu/_media/unreasonable-effectiveness-cpam1960.pdf|Original paper]]
+  * Law, R., Murrell, D. J., & Dieckmann, U. (2003). Population growth in space and time: spatial logistic equations. Ecology, 84(1), 252-262.
-  * [[http://en.wikipedia.org/wiki/The_Unreasonable_Effectiveness_of_Mathematics_in_the_Natural_Sciences|in Wikipedia]]
+  * Maciel, G.A. and Lutscher, F. (2013). How individual movement response to habitat edges affects population persistence and spatial spread. The American Naturalist, 182(1), pp.42-52. [[http://esa.org/theory/awards|"Outstanding Ecological Theory Paper"]] awarded by the Ecological Society of America.
-  * [[http://www.christopherxjjensen.com/wp-content/uploads/2010/06/Ginzburg-et-al-2007.pdf|Aiming the “unreasonable effectiveness of mathematics” at ecological theory]]. Giznburg //et al//. (2007).
+  * Maciel, G. A., & Kraenkel, R. A. (2014). How population loss through habitat boundaries determines the dynamics of a predator–prey system. Ecological Complexity, 20, 33-42.
+  * Azevedo, F., Kraenkel, R. A., & da Silva, D. P. (2012). Competitive release and area effects. Ecological Complexity, 11, 154-159. //Generalization of Skellam's critical pathc size model to two competing species//.