adegenet

MaRDI QIDQ19176swMATHCRANFDO

Authors Thibaut Jombart, Zhian N. Kamvar

Last update 6 February 2025

Copyright license GNU General Public License, version 2.0, GNU General Public License, version 3.0

Software version identifier 2.1.10, PACKAGES.rds, 1.0-0, 1.0-1, 1.0-2, 1.1-0, 1.1-1, 1.1-2, 1.2-0, 1.2-1, 1.2-2, 1.2-3, 1.2-4, 1.2-5, 1.2-6, 1.2-7, 1.2-8, 1.3-0, 1.3-1, 1.3-2, 1.3-3, 1.3-4, 1.3-5, 1.3-6, 1.3-7, 1.3-8, 1.3-9.1, 1.3-9.2, 1.3-9, 1.4-0, 1.4-1, 1.4-2, 2.0.0, 2.0.1, 2.1.0, 2.1.1, 2.1.2, 2.1.3, 2.1.4, 2.1.5, 2.1.6, 2.1.7, 2.1.8, 2.1.9, 2.1.11

Official website http://cran.r-project.org/web/packages/adegenet/index.html

Source code repository https://github.com/cran/adegenet

Description

Toolset for the exploration of genetic and genomic data. Adegenet provides formal (S4) classes for storing and handling various genetic data, including genetic markers with varying ploidy and hierarchical population structure ('genind' class), alleles counts by populations ('genpop'), and genome-wide SNP data ('genlight'). It also implements original multivariate methods (DAPC, sPCA), graphics, statistical tests, simulation tools, distance and similarity measures, and several spatial methods. A range of both empirical and simulated datasets is also provided to illustrate various methods.

Cited in

(36)

• mmod
• DA
• apex
• adephylo
• LASER
• Clustal
• SPA3G
• CGEN
• hierfstat
• PopGenReport
• SNPStats
• Analysis of phylogenetics and evolution with R
• MDR
• KRLS
• hapassoc
• SKAT
• treespace
• Circuit theory and model-based inference for landscape connectivity
• GeneGeneInteR
• dartR
• snpAIMeR
• dartR.base
• dartR.captive
• dartR.popgen
• dartR.sim
• dartR.spatial
• poppr
• SNPfiltR
• Orangutan
• cdmetapopR
• dartR.sexlinked
• StAMPP
• PopGenHelpR
• graph4lg
• dartR.data
• AlleleShift

This page was built for software: adegenet