Random Forest characterization of upland vegetation and management burning from aerial imagery

Journal of Biogeography

Volumn 37, Issue 1, 2010, Pages 37-46

  Chapman, Daniel S ^a,b   Bonn, Aletta ^c   Kunin, William E ^b   Cornell, Stephen J ^b  

^a CENTRE FOR ECOLOGY AND HYDROLOGY   (United Kingdom)

^b UNIVERSITY OF LEEDS   (United Kingdom)

^c Moorland Centre   (United Kingdom)

Author keywords

Calluna vulgaris; Lagopus lagopus scoticus; Landscape ecology; Management burning; Molinia caerulea; Pteridium aquilinum; Remote sensing; UK

Indexed keywords

AERIAL PHOTOGRAPH; BEDROCK; GAMEBIRD; HABITAT CONSERVATION; LANDSCAPE ECOLOGY; LONG-TERM CHANGE; MOORLAND; NATIONAL PARK; PRESCRIBED BURNING; REMOTE SENSING; SPATIAL DISTRIBUTION; UPLAND REGION; VEGETATION COVER;

ENGLAND; UNITED KINGDOM;

CALLUNA; CALLUNA VULGARIS; LAGOPUS LAGOPUS SCOTICUS; MOLINIA CAERULEA; PTERIDIUM AQUILINUM; TETRAONIDAE;

EID: 72549084319     PISSN: 03050270     EISSN: 13652699     Source Type: Journal    
DOI: 10.1111/j.1365-2699.2009.02186.x     Document Type: Article

References (38)

1. Augustin, N.H., Cummins, R.P. French, D.D. (2001) Exploring spatial vegetation dynamics using logistic regression and a multinomial logit model. Journal of Applied Ecology, 38, 991 1006.
2. Barclay-Estrup, P. (1969) Description and interpretation of cyclical processes in a heath community. I. Vegetational change in relation to the Calluna cycle. Journal of Ecology, 57, 737 758.
3. Barret, E.C. Curtis, L.F. (1999) Introduction to environmental remote sensing. Stanley Thornes, Cheltenham, UK.
4. Bjornstad, O.N. (2006) NCF: spatial nonparametric covariance functions. Available at: http://cran.r-project.org/web/packages/ncf/index.html (accessed 11 June 2009).
5. Bogaert, J., Rousseau, R., Van Hecke, P. Impens, I. (2000) Alternative perimeter-area ratios for measurement of 2D shape compactness of habitats. Applied Mathematics and Computation, 111, 71 85.
6. Bonn, A., Allott, T., Hubacek, K. Stewart, J. (2009) Drivers of environmental change in uplands. Routledge, Abingdon, UK.
7. Breiman, L. (2001) Random Forests. Machine Learning, 45, 5 32.
8. Breiman, L., Friedman, J.H., Olshen, R.A. Stone, C.J. (1984) Classification and regression trees. Wadsworth and Brooks, Monterey, CA.
9. Brown, A., Horsfield, D. Thompson, D.B.A. (1993) A new biogeographical classification of the Scottish uplands. 1. Descriptions of vegetation blocks and their spatial variation. Journal of Ecology, 81, 207 230.
10. Buchanan, G., Pearce-Higgins, J., Grant, M., Robertson, D. Waterhouse, T. (2005) Characterization of moorland vegetation and the prediction of bird abundance using remote sensing. Journal of Biogeography, 32, 697 707.
11. Chapman, D.S., Termansen, M., Quinn, C.H., Jin, N., Bonn, A., Cornell, S.J., Fraser, E.D.G., Hubacek, K., Kunin, W.E. Reed, M.S. (2009) Modelling the coupled dynamics of moorland management and upland vegetation. Journal of Applied Ecology, 46, 278 288.
12. Cutler, D.R., Edwards, T.C., Beard, K.H., Cutler, A. Hess, K.T. (2007) Random Forests for classification in ecology. Ecology, 88, 2783 2792.
13. De'ath, G. (2002) Multivariate regression trees: a new technique for modeling species-environment relationships. Ecology, 83, 1105 1117.
14. DEFRA (2007) The heather and grass burning code: 2007 version. Department for Environment, Food and Rural Affairs, London.
15. Dormann, C.F., McPherson, J.M., Araújo, M.B., Bivand, R., Bolliger, J., Carl, G., Davies, R.G., Hirzel, A., Jetz, W., Kissling, W.D., Kühn, I., Ohlemüller, R., Peres-Neto, P.R., Reineking, B., Schröder, B., Schurr, F.M. Wilson, R. (2007) Methods to account for spatial autocorrelation in the analysis of species distributional data: a review. Ecography, 30, 609 628.
16. ESRI Inc. (2006) ArcMap, version 9.2. ESRI Inc., Redlands, CA.
17. Garzón, M.B., Blazek, R., Neteler, M., Dios, R.S.D., Ollero, H.S. Furlanello, C. (2006) Predicting habitat suitability with machine learning models: the potential area of Pinus sylvestris L. in the Iberian Peninsula. Ecological Modelling, 197, 383 393.
18. Gimingham, C.H. (1972) Ecology of heathlands. Chapman & Hall, London.
19. Holden, J., Shotbolt, L., Bonn, A., Burt, T.P., Chapman, P.J., Dougill, A.J., Fraser, E.D.G., Hubacek, K., Irvine, B., Kirkby, M.J., Reed, M.S., Prell, C., Stagl, S., Stringer, L.C., Turner, A. Worrall, F. (2007) Environmental change in moorland landscapes. Earth Science Reviews, 82, 75 100.
20. Lawler, J.J., White, D., Neilson, R.P. Blaustein, A.R. (2006) Predicting climate-induced range shifts: model differences and model reliability. Global Change Biology, 12, 1568 1584.
21. Liaw, A. Wiener, M. (2002) Classification and regression by randomForest. R News, 2/3, 18 22.
22. Lillesand, T.M., Kiefer, R.W. Chipman, J.W. (2004) Remote sensing and image interpretation. Wiley, New York.
23. Mehner, H., Cutler, M., Fairbairn, D. Thompson, G. (2004) Remote sensing of upland vegetation: the potential of high spatial resolution satellite sensors. Global Ecology and Biogeography, 13, 359 369.
24. Milne, J.A. Hartley, S.E. (2001) Upland plant communities - sensitivity to change. Catena, 42, 333 343.
25. Oksanen, J., Kindt, R., Legendre, P., O' Hara, B., Simpson, G.L., Solymos, P., Henry, M., Stevens, H. Wagner, H. (2007) Vegan: community ecology package. Available at: http://cran.r-project.org/web/packages/vegan/index.html (accessed 11 June 2009).
26. Olden, J.D., Lawler, J.J. Poff, N.L. (2008) Machine learning methods without tears: a primer for ecologists. Quarterly Review of Biology, 83, 171 193.
27. Oom, S.P., Sibbald, A.M., Hester, A.J., Miller, D.R. Legg, C.J. (2008) Impacts of sheep grazing a complex vegetation mosaic: relating behaviour to vegetation change. Agriculture Ecosystems and Environment, 124, 219 228.
28. Pakeman, R.J., Le Duc, M.G. Marrs, R.H. (2000) Bracken distribution in Great Britain: strategies for its control and the sustainable management of marginal land. Annals of Botany, 85, 37 46.
29. Peters, J., De Baets, B., Verhoest, N.E.C., Samson, R., Degroeve, S., De Becker, P. Huybrechts, W. (2007) Random forests as a tool for ecohydrological distribution modelling. Ecological Modelling, 207, 304 318.
30. Prasad, A.M., Iverson, L.R. Liaw, A. (2006) Newer classification and regression tree techniques: bagging and Random Forests for ecological prediction. Ecosystems, 9, 181 199.
31. Robertson, P.A., Park, K.J. Barton, A.F. (2001) Loss of heather Calluna vulgaris moorland in the Scottish uplands: the role of red grouse Lagopus lagopus scoticus management. Wildlife Biology, 7, 11 16.
32. Stace, C.A. (1991) New flora of the British Isles. Cambridge University Press, Cambridge.
33. Thompson, D.B.A., MacDonald, A.J., Marsden, J.H. Galbraith, C.A. (1995) Upland heather moorland in Great Britain: a review of international importance, vegetation change and some objectives for nature conservation. Biological Conservation, 71, 163 178.
34. Tibshirani, R. (1996) Bias, variance, and prediction error for classification rules. Technical report, Statistics Department, University of Toronto, Toronto.
35. Usher, M.B. Thompson, D.B.A. (1993) Variation in the upland heathlands of Great Britain: conservation importance. Biological Conservation, 66, 69 81.
36. Wood, S.N. (2008) Fast stable direct fitting and smoothness selection for generalized additive models. Journal of the Royal Statistical Society B: Statistical Methodology, 70, 495 518.
37. Yallop, A.R., Thacker, J.I., Thomas, G., Stephens, M., Clutterbuck, B., Brewer, T. Sannier, C.A.D. (2006) The extent and intensity of management burning in the English uplands. Journal of Applied Ecology, 43, 1138 1148.
38. Yallop, A.R., Clutterbuck, B. Thacker, J.I. (2009) Burning issues: the history and ecology of managed fires in the uplands. Drivers of environmental change in uplands (ed. by A. Bonn, T. Allott, K. Hubacek J. Stewart pp. 171 185. Routledge, Abingdon, UK.