R version of 'GenClone' (a computer program to analyse genotypic data, test for clonality and describe spatial clonal organization, Arnaud-Haond & Belkhir 2007, < http://wwz.ifremer.fr/clonix/content/download/68205/903914/file/GenClone2.0.setup.zip>), this package allows clone handling as 'GenClone' does, plus the possibility to work with several populations, MultiLocus Lineages (MLL) custom definition and use, and p-value calculation for psex statistic (probability of originating from distinct sexual events) and psex_Fis statistic (taking account of Hardy-Weinberg equilibrium departure) as 'MLGsim'/'MLGsim2' (a program for detecting clones using a simulation approach, Stenberg et al. 2003).
RClone is a R package version of GenClone program: to analyse data (SSR, SNP, ...), test for clonality and describe spatial clonal organisation.
Some of these analysis can be applied to dataset without clones.
Get the lastest development version from github:
#install.packages("devtools") devtools::install_github("dbailleul/RClone") library(RClone)
or the released version from CRAN:
And then, generate manuals:
vignette("RClone_quickmanual") #analysing one population vignette("RClone_qmsevpops") #analysing several populations