RClone: a package to identify MultiLocus Clonal Lineages and handle clonal data sets inr.

Novel R tools for analysis of genome-wide population genetic data with emphasis on clonality

(2015) Zhian N. Kamvar et al.   Frontiers in Genetics

Poppr: an R package for genetic analysis of populations with clonal, partially clonal, and/or sexual reproduction

(2014) Zhian N. Kamvar et al.   PeerJ

adegenet 1.3-1: new tools for the analysis of genome-wide SNP data

(2011) Thibaut Jombart et al.   BIOINFORMATICS

ABGD, Automatic Barcode Gap Discovery for primary species delimitation

(2011) N. PUILLANDRE et al.   MOLECULAR ECOLOGY

polysat: an R package for polyploid microsatellite analysis

(2011) LINDSAY V. CLARK et al.   Molecular Ecology Resources

adegenet: a R package for the multivariate analysis of genetic markers

(2008) Thibaut Jombart   BIOINFORMATICS