Type: Package
Package: itsdm
Title: Isolation Forest-Based Presence-Only Species Distribution
        Modeling
Version: 0.2.2
Authors@R: c(
    person("Lei", "Song", , "lsong@clarku.edu", role = c("aut", "cre"),
           comment = c(ORCID = "0000-0002-4371-1473")),
    person("Lyndon", "Estes", , "lestes@clarku.edu", role = "ths")
  )
Description: 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://dm-gatech.github.io/CS8803-Fall2018-DML-Papers/shapley.pdf>, 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>.
License: MIT + file LICENSE
URL: https://github.com/LLeiSong/itsdm,
        https://lleisong.github.io/itsdm/
BugReports: https://github.com/LLeiSong/itsdm/issues
Depends: R (>= 3.5.0)
Imports: checkmate, dplyr, fastshap, ggplot2, isotree, methods, mgcv,
        ncdf4, outliertree, patchwork, raster, rlang, ROCit, sf, stars
        (>= 0.6-0), stats, stringr, tidyselect, utils
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
Encoding: UTF-8
Language: en-US
LazyData: true
RoxygenNote: 7.3.2
NeedsCompilation: no
Packaged: 2025-07-01 22:22:12 UTC; leisong
Author: Lei Song [aut, cre] (ORCID: <https://orcid.org/0000-0002-4371-1473>),
  Lyndon Estes [ths]
Maintainer: Lei Song <lsong@clarku.edu>
Repository: CRAN
Date/Publication: 2025-07-01 22:50:02 UTC
Built: R 4.4.3; ; 2026-02-13 04:57:40 UTC; windows
