CRAN/E | dartR.popgen

dartR.popgen

Analysing 'SNP' and 'Silicodart' Data Generated by Genome-Wide Restriction Fragment Analysis

Installation

About

Facilitates the analysis of SNP (single nucleotide polymorphism) and silicodart (presence/absence) data. 'dartR.popgen' provides a suit of functions to analyse such data in a population genetics context. It provides several functions to calculate population genetic metrics and to study population structure. Quite a few functions need additional software to be able to run (gl.run.structure(), gl.blast(), gl.LDNe()). You find detailed description in the help pages how to download and link the packages so the function can run the software. 'dartR.popgen' is part of the the 'dartRverse' suit of packages. Gruber et al. (2018) doi:10.1111/1755-0998.12745. Mijangos et al. (2022) doi:10.1111/2041-210X.13918.

Citation dartR.popgen citation info
green-striped-gecko.github.io/dartR/
Bug report File report

Key Metrics

Version 0.32
R ≥ 3.5
Published 2023-11-21 159 days ago
Needs compilation? no
License GPL (≥ 3)
CRAN checks dartR.popgen results

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Maintainer

Maintainer

Bernd Gruber

bernd.gruber@canberra.edu.au

Authors

Bernd Gruber

aut / cre

Arthur Georges

aut

Jose L. Mijangos

aut

Carlo Pacioni

aut

Peter J. Unmack

ctb

Oliver Berry

ctb

Lindsay V. Clark

ctb

Floriaan Devloo-Delva

ctb

Eric Archer

ctb

Material

Reference manual
Package source

macOS

r-release

arm64

r-oldrel

arm64

r-release

x86_64

r-oldrel

x86_64

Windows

r-develnot available

x86_64

r-releasenot available

x86_64

r-oldrelnot available

x86_64

Depends

R ≥ 3.5
adegenet ≥ 2.0.0
dartR.base
dartR.data

Imports

methods
utils
MASS
dplyr
patchwork
crayon
ggplot2
data.table
stringr

Suggests

SIBER
expm
fields
gplots
gridExtra
igraph
iterpc
label.switching
leaflet
plyr
proxy
purrr
qvalue
raster
reshape2
scales
snpStats
tidyr
viridis
zoo
gsubfn
sp