adegenet: Exploratory Analysis of Genetic and Genomic Data
Jombart, T
, Kamvar, ZN, Collins, C, Luštrik, R, Beugin, M, Knaus, BJ, Solymos, P, Mikryukov, V, Schliep, K, Maié, T, Morkovsky, L, Ahmed, I, Cori, A, Calboli, F, Ewing, R, Michaud, F, DeCamp, R and Courtiol, A
(2020).
adegenet: Exploratory Analysis of Genetic and Genomic Data.
[Dataset].
The Comprehensive R Archive Network.
https://cran.r-project.org/web/packages/adegenet/
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.
Keywords
Genetic data, R packageItem Type | Dataset |
---|---|
Capture method | Other |
Date | 20 May 2020 |
Language(s) of written materials | English |
Creator(s) |
Jombart, T |
LSHTM Faculty/Department | Faculty of Epidemiology and Population Health > Dept of Infectious Disease Epidemiology (-2023) |
Participating Institutions | London School of Hygiene & Tropical Medicine, London, United Kingdom |
Date Deposited | 26 May 2020 10:07 |
Last Modified | 08 Jul 2021 12:52 |
Publisher | The Comprehensive R Archive Network |
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ORCID: https://orcid.org/0000-0003-2226-8692