Package: corridoR 0.2.0

corridoR: Migration Corridors and Genetic Range Shifts from Landscape Genetic Data

Models genetic connectivity along migration corridors and forecasts how it shifts under climate change, following Maier et al. (2022) <doi:10.1038/s41437-022-00561-x>. Least cost corridors are built from accumulated cost surfaces and used as weights to summarize raw environmental layers between sites; each group of environmental features can choose its own corridor bandwidth; and pairwise predictions of differentiation and directional migration are mapped back onto the landscape as magnitude and net-direction surfaces. Includes readers for common genotype formats (STRUCTURE, GENEPOP, VCF, GenAlEx, FSTAT and PLINK files, and 'adegenet' objects), pairwise fixation indices, and the directional differentiation of Sundqvist et al. (2016) <doi:10.1002/ece3.2096>.

Authors:Paul A. Maier [aut, cre, cph]

corridoR_0.2.0.tar.gz
corridoR_0.2.0.zip(r-4.7-any)corridoR_0.2.0.zip(r-4.6-any)corridoR_0.2.0.zip(r-4.5-any)
corridoR_0.2.0.tgz(r-4.6-any)corridoR_0.2.0.tgz(r-4.5-any)
corridoR_0.2.0.tar.gz(r-4.7-any)corridoR_0.2.0.tar.gz(r-4.6-any)
corridoR_0.2.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
corridoR/json (API)

# Install 'corridoR' in R:

install.packages('corridoR', repos = c('https://paulmaier.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/paulmaier/corridor/issues

Pkgdown/docs site:https://paulmaier.github.io

On CRAN:

climate-change connectivity conservation-genetics cubist fst gene-flow landscape-genetics least-cost-path population-genetics range-shifts

4.30 score 1 scripts 22 exports 26 dependencies

Last updated from:9e2e0cb3aa. Checks:9 OK. Indexed: yes.

Target	Result	Time
linux-devel	OK	212
source / vignettes	OK	555
linux-release	OK	194
macos-release	OK	234
macos-oldrel	OK	171
windows-devel	OK	119
windows-release	OK	106
windows-oldrel	OK	149
wasm-release	OK	182

Exports:accumulated_cost as_popcounts both_directions corridor_example corridor_extract directional_gst fit_connectivity lcc_weights least_cost_paths lineage_cross make_transition map_pairwise pair_weights pairwise_fst pairwise_table path_buffers plot_shift rank_resistance read_genotypes select_bandwidth shift_arrows site_contrast

Dependencies:class classInt cli cpp11 DBI e1071 gdistance glue igraph KernSmooth lattice lifecycle magrittr Matrix pkgconfig proxy raster Rcpp rlang s2 sf sp terra units vctrs wk

Getting started with corridoR

Citation

Rendered fromcorridoR.Rmdusingknitr::rmarkdown

Last update: 2026-10-07
Started: 2026-10-02

Help page	Topics
Accumulated cost surfaces	accumulated_cost
Population allele counts	as_popcounts as_popcounts.genind as_popcounts.genlight as_popcounts.genpop as_popcounts.popcounts as_popcounts.vcfR
Use each pair in both directions	both_directions
Simulated example landscape	corridor_example
Summarize environmental layers within corridors	corridor_extract
Directional genetic differentiation and net migration (dM)	directional_gst
Fit a Cubist model of connectivity	fit_connectivity
Least cost corridor weights for a pair of sites	lcc_weights
Least cost paths between sites	least_cost_paths
Lineage effect for pairs of sites	lineage_cross
Transition layer from a resistance surface	make_transition
Map pairwise values onto the landscape	map_pairwise
Case weights for pairwise data	pair_weights
Pairwise FST between populations	pairwise_fst
Pairwise genetic table	pairwise_table
Buffers around least cost paths	path_buffers
Plot a map of projected change	plot_shift
Predict from a connectivity model	predict.corridor_model
Rank resistance surfaces by how well they explain genetic distance	rank_resistance
Read genotypes from a file	read_genotypes
Choose a corridor bandwidth for each group of features	select_bandwidth
Arrows for a directional map	shift_arrows
Environmental contrasts between sites	site_contrast

Package: corridoR 0.2.0

corridoR: Migration Corridors and Genetic Range Shifts from Landscape Genetic Data

Citation

Development and contributors

Readme and manuals

Help Manual

Usage by other packages (reverse dependencies)