itsdm

Collection of R functions to do purely presence-only species distribution modeling with isolation forest (iForest) and its variations such as Extended isolation forest and SCiForest. See the details of these methods in references: Liu, F.T., Ting, K.M. and Zhou, Z.H. (2008) doi:10.1109/ICDM.2008.17, Hariri, S., Kind, M.C. and Brunner, R.J. (2019) doi:10.1109/TKDE.2019.2947676, Liu, F.T., Ting, K.M. and Zhou, Z.H. (2010) doi:10.1007/978-3-642-15883-4_18, Guha, S., Mishra, N., Roy, G. and Schrijvers, O. (2016) https://proceedings.mlr.press/v48/guha16.html, Cortes, D. (2021) doi:10.48550/arXiv.2110.13402. Additionally, Shapley values are used to explain model inputs and outputs. See details in references: Shapley, L.S. (1953) doi:10.1515/9781400881970-018, Lundberg, S.M. and Lee, S.I. (2017) https://dl.acm.org/doi/abs/10.5555/3295222.3295230, Molnar, C. (2020) ISBN:978-0-244-76852-2, Štrumbelj, E. and Kononenko, I. (2014) doi:10.1007/s10115-013-0679-x. itsdm also provides functions to diagnose variable response, analyze variable importance, draw spatial dependence of variables and examine variable contribution. As utilities, the package includes a few functions to download bioclimatic variables including 'WorldClim' version 2.0 (see Fick, S.E. and Hijmans, R.J. (2017) doi:10.1002/joc.5086) and 'CMCC-BioClimInd' (see Noce, S., Caporaso, L. and Santini, M. (2020) doi:10.1038/s41597-020-00726-5).

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