Package: adegenet
Version: 2.0.1
Encoding: UTF-8
Date: 2016-02-15
Title: Exploratory Analysis of Genetic and Genomic Data
Author: Thibaut Jombart, Zhian N. Kamvar, Roman Lustrik, Caitlin Collins, Marie-
Pauline Beugin, Brian Knaus, Peter Solymos, Klaus Schliep, Ismail Ahmed, Anne
Cori, Federico Calboli
Maintainer: Thibaut Jombart <thibautjombart@gmail.com>
Suggests: pegas, hierfstat, akima, maps, splancs, adehabitat, tripack,
testthat
Depends: R (>= 2.14), methods, ade4
Imports: utils, stats, grDevices, MASS, igraph, ape, shiny, ggplot2,
seqinr, parallel, spdep, boot, reshape2, dplyr (>= 0.4.1),
vegan
URL: http://adegenet.r-forge.r-project.org/
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.
Collate: adegenet.package.R datasets.R orthobasis.R classes.R
constructors.R accessors.R basicMethods.R handling.R auxil.R
minorAllele.R setAs.R SNPbin.R strataMethods.R
hierarchyMethods.R glHandle.R glFunctions.R glSim.R
find.clust.R hybridize.R scale.R fstat.R import.R seqTrack.R
chooseCN.R genind2genpop.R loadingplot.R sequences.R
gstat.randtest.R makefreq.R colorplot.R monmonier.R spca.R
coords.monmonier.R haploGen.R old2new.R spca.rtests.R dapc.R
xvalDapc.R haploPop.R PCtest.R dist.genpop.R Hs.R propShared.R
export.R HWE.R propTyped.R inbreeding.R glPlot.R gengraph.R
simOutbreak.R mutations.R snpposi.R snpzip.R pairDist.R
servers.R zzz.R
License: GPL (>= 2)
LazyLoad: yes
RoxygenNote: 5.0.1
NeedsCompilation: yes
Packaged: 2016-02-15 13:36:45 UTC; thibaut
Repository: CRAN
Date/Publication: 2016-02-15 16:12:41