Package: graph4lg
Type: Package
Title: Build Graphs for Landscape Genetics Analysis
Version: 2.0.0
Authors@R: 
    c(person(given = "Paul",
             family = "Savary",
             role = c("aut", "cre"),
             email = "psavary@protonmail.com",
             comment = c(ORCID = "0000-0002-2104-9941")),
	  person(given = "Gilles",
             family = "Vuidel",
             role = "ctb",
             comment = c(ORCID = "0000-0001-6330-6136")),
      person(given = "Tyler",
             family = "Rudolph",
             role = "ctb"),
      person(given = "Alexandrine",
             family = "Daniel",
             role = "ctb",
             comment = c(ORCID = "0000-0003-3379-281X")),
      person(given = "Jong Yoon",
             family = "Jeon",
             role = "ctb",
             comment = c(ORCID = "0000-0002-2840-8425")))
Maintainer: Paul Savary <psavary@protonmail.com>
Description: Build graphs for landscape genetics analysis. This set of
        functions can be used to import and convert spatial and genetic
        data initially in different formats, import landscape graphs
        created with 'Graphab' software (Foltete et al., 2021)
        <doi:10.1016/j.simpa.2021.100065>, make diagnosis plots of
        isolation by distance relationships in order to choose how to
        build genetic graphs, create graphs with a large range of
        pruning methods, weight their links with several genetic
        distances, plot and analyse graphs, compare them with other
        graphs. It uses functions from other packages such as
        'adegenet' (Jombart, 2008) <doi:10.1093/bioinformatics/btn129>
        and 'igraph' (Csardi et Nepusz, 2006) <https://igraph.org/>. It
        also implements methods commonly used in landscape genetics to
        create graphs, described by Dyer et Nason (2004)
        <doi:10.1111/j.1365-294X.2004.02177.x> and Greenbaum et
        Fefferman (2017) <doi:10.1111/mec.14059>, and to analyse
        distance data (van Strien et al., 2015)
        <doi:10.1038/hdy.2014.62>. Recent updates introduce multiple
        habitat graph functionalities (as described by Savary et al.,
        2024) <doi:10.1007/s10980-024-01947-4>.
Depends: R (>= 4.0)
License: GPL-2
Encoding: UTF-8
LazyData: true
Imports: adegenet, ggplot2, stringr, igraph, stats, spatstat.geom,
        spatstat.linnet, Matrix, vegan, utils, methods, pegas, MASS,
        tidyr, sf, hierfstat, rappdirs, gdistance, raster, terra,
        ecodist, Rdpack
Suggests: knitr, rmarkdown
RdMacros: Rdpack
VignetteBuilder: knitr, rmarkdown
Config/roxygen2/version: 8.1.0
NeedsCompilation: no
Packaged: 2026-09-24 17:00:50 UTC; root
Author: Paul Savary [aut, cre] (ORCID:
        <https://orcid.org/0000-0002-2104-9941>), Gilles Vuidel [ctb]
        (ORCID: <https://orcid.org/0000-0001-6330-6136>), Tyler Rudolph
        [ctb], Alexandrine Daniel [ctb] (ORCID:
        <https://orcid.org/0000-0003-3379-281X>), Jong Yoon Jeon [ctb]
        (ORCID: <https://orcid.org/0000-0002-2840-8425>)
Config/pak/sysreqs: libabsl-dev cmake libgdal-dev gdal-bin libgeos-dev
        libglpk-dev make libicu-dev libuv1-dev libxml2-dev libssl-dev
        libproj-dev libsqlite3-dev libudunits2-dev zlib1g-dev
Repository: https://psavary3.r-universe.dev
Date/Publication: 2026-09-24 10:40:02 UTC
RemoteUrl: https://github.com/cran/graph4lg
RemoteRef: HEAD
RemoteSha: 1579e74e895c3e8dad2e21e4b1a5775a545ae2b5