title: adegenet 1.3-1: new tools for the analysis of genome-wide SNP data.
abstract: CONCLUSIONS
  While the R software is becoming a standard for the analysis of genetic data, classical population genetics tools are being challenged by the increasing availability of genomic sequences. Dedicated tools are needed for harnessing the large amount of information generated by next-generation sequencing technologies. We introduce new tools implemented in the adegenet 1.3-1 package for handling and analyzing genome-wide single nucleotide polymorphism (SNP) data. Using a bit-level coding scheme for SNP data and parallelized computation, adegenet enables the analysis of large genome-wide SNPs datasets using standard personal computers.
  
  
  BACKGROUND
  adegenet 1.3-1 is available from CRAN: http://cran.r-project.org/web/packages/adegenet/. Information and support including a dedicated forum of discussion can be found on the adegenet website: http://adegenet.r-forge.r-project.org/. adegenet is released with a manual and four tutorials totalling over 300 pages of documentation, and distributed under the GNU General Public Licence (≥2).
  
  
  BACKGROUND
  t.jombart@imperial.ac.uk.
  
  
  BACKGROUND
  Supplementary data are available at Bioinformatics online.
authors.affiliation: MRC Centre for Outbreak Analysis and Modelling, Department of Infectious Disease Epidemiology, Imperial College, Norfolk Place, London W2 1PG, UK. t.jombart@imperial.ac.uk
authors.forename: Thibaut
authors.initials: T
authors.lastname: Jombart
authors.forename: Ismaïl
authors.initials: I
authors.lastname: Ahmed
mesh_terms: D005828:Genetics, Population; D016678:Genome; D055106:Genome-Wide Association Study; D023281:Genomics / Q000379:methods*; D020641:Polymorphism, Single Nucleotide; D012984:Software