itsdm
Isolation Forest-Based Presence-Only Species Distribution Modeling
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).
- Version0.2.1
- R version≥ 3.5.0
- LicenseMIT
- LicenseLICENSE
- Needs compilation?No
- Languageen-US
- Liu, F.T., Ting, K.M. and Zhou, Z.H. (2008)
- Hariri, S., Kind, M.C. and Brunner, R.J. (2019)
- Liu, F.T., Ting, K.M. and Zhou, Z.H. (2010)
- Guha, S., Mishra, N., Roy, G. and Schrijvers, O. (2016)
- Cortes, D. (2021)
- Shapley, L.S. (1953)
- Lundberg, S.M. and Lee, S.I. (2017)
- Molnar, C. (2020)
- Štrumbelj, E. and Kononenko, I. (2014)
- Fick, S.E. and Hijmans, R.J. (2017)
- Noce, S., Caporaso, L. and Santini, M. (2020)
- Last release06/11/2023
Documentation
Team
Lei Song
Lyndon Estes
Show author detailsRolesThesis advisor
Insights
Last 30 days
This package has been downloaded 178 times in the last 30 days. More than a random curiosity, but not quite a blockbuster. Still, it's gaining traction! The following heatmap shows the distribution of downloads per day. Yesterday, it was downloaded 4 times.
The following line graph shows the downloads per day. You can hover over the graph to see the exact number of downloads per day.
Last 365 days
This package has been downloaded 3,113 times in the last 365 days. Now we’re talking! This work is officially 'heard of in academic circles', just like those wild research papers on synthetic bananas. The day with the most downloads was Jul 21, 2024 with 143 downloads.
The following line graph shows the downloads per day. You can hover over the graph to see the exact number of downloads per day.
Data provided by CRAN
Binaries
Dependencies
- Imports16 packages
- Suggests2 packages