Author: Thibaut Jombart, Ismail Ahmed, Federico Calboli, Anne Cori,

parallel, akima, maps, splancs, hierfstat
old2new.R spca.rtests.R dapc.R xvalDapc.R haploPop.R PCtest.R

Author: Thibaut Jombart, Ismail Ahmed, Federico Calboli, Anne Cori, Tobias Erik Reiners, Peter Solymos
Imports: utils, stats, MASS, igraph, ape

Author: Thibaut Jombart, Caitlin Collins, Peter Solymos, Ismail Ahmed, Federico Calboli, Anne Cori
Imports: utils, stats, MASS, igraph, ape, shiny, ggplot2

Package: adegenet
Version: 2.0.0
Encoding: UTF-8
Date: 2015-07-07
Title: Exploratory Analysis of Genetic and Genomic Data
Author: Thibaut Jombart, Caitlin Collins, Zhian N. Kamvar, Roman Lustrik, Peter Solymos, Ismail Ahmed, Federico Calboli, Anne Cori, Klaus Schliep
Maintainer: Thibaut Jombart <t.jombart@imperial.ac.uk>
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)
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
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
NeedsCompilation: yes
Packaged: 2015-07-07 09:55:22 UTC; thibaut
Repository: CRAN
Date/Publication: 2015-07-07 15:44:10