Package: terradish
Type: Package
Title: Fast Gradient-Based Optimization of Resistance Surfaces
Version: 1.1.0
Date: 2026-10-28
Language: en-US
Authors@R: c(
  person(
    given = "Bill",
    family = "Peterman",
    role = c("aut", "cre"),
    email = "peterman.73@osu.edu",
    comment = c(ORCID = "0000-0001-5229-9268")
  ),
  person(
    given = c("Nathaniel", "S."),
    family = "Pope",
    role = "aut",
    email = "nspope@utexas.edu",
    comment = c(ORCID = "0000-0001-8409-7812")
  )
  )
Description: Maximum likelihood estimation of landscape conductance
        surfaces from genetic data on raster graphs, using Newton and
        quasi-Newton optimization with analytic derivatives. Fits
        log-linear conductance models with optional joint estimation of
        Gaussian smoothing scales and spline response shapes, linked to
        pairwise genetic distances through maximum likelihood
        population effects models or to allele-frequency covariance
        through a Wishart likelihood on site contrasts, with the same
        pairwise distance and environment covariates available in both.
        Provides exact sparse and iterative solvers for large rasters,
        fixed-domain spatial cross-validation for comparing conductance
        formulas, and simulation tools for study design. Works with
        'terra' objects. Fitting one parameterized conductance surface
        to genetic data, rather than regressing on separate resistance
        distances, follows Peterman and Pope (2021)
        <doi:10.1111/mec.15716>. Background on population-effects
        models and circuit-based covariance models is provided by
        Clarke, Rothery and Raybould (2002) <doi:10.1198/108571102320>
        and Hanks and Hooten (2013) <doi:10.1080/01621459.2012.724647>,
        respectively.
URL: https://github.com/wpeterman/terradish,
        https://doi.org/10.5281/zenodo.21225711
BugReports: https://github.com/wpeterman/terradish/issues
License: BSD_3_clause + file LICENSE
Depends: R (>= 4.3.0)
Imports: ggplot2, grDevices, landgraph (>= 0.0.3), MASS, Matrix (>=
        1.6-2), methods, multiScaleR, nlme, parallel, Rcpp (>= 1.0.4),
        splines, stats, terra, tools, utils
LinkingTo: Matrix (>= 1.6-2), Rcpp, RcppArmadillo, RcppEigen
Suggests: adegenet, knitr, numDeriv, patchwork, pkgload, rmarkdown,
        testthat (>= 3.0.0)
VignetteBuilder: knitr
Encoding: UTF-8
Config/testthat/edition: 3
Config/roxygen2/version: 8.0.0
Config/pak/sysreqs: libabsl-dev cmake libgdal-dev gdal-bin libgeos-dev
        make libssl-dev libproj-dev libsqlite3-dev libudunits2-dev
Repository: https://wpeterman.r-universe.dev
Date/Publication: 2026-10-29 13:53:10 UTC
RemoteUrl: https://github.com/wpeterman/terradish
RemoteRef: HEAD
RemoteSha: 960db5a5e42c5e5245d667e40cc82cb44fd8dc20
NeedsCompilation: yes
Packaged: 2026-11-12 16:48:15 UTC; root
Author: Bill Peterman [aut, cre] (ORCID:
    <https://orcid.org/0000-0001-5229-9268>),
  Nathaniel S. Pope [aut] (ORCID:
    <https://orcid.org/0000-0001-8409-7812>)
Maintainer: Bill Peterman <peterman.73@osu.edu>