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

Horizontal Transmission of Clonal Cancer Cells Causes Leukemia in Soft-Shell Clams

(2015) Michael J. Metzger et al.   CELL

Apparent vector-mediated parent-to-offspring transmission in an avian malaria-like parasite

(2015) Nayden Chakarov et al.   MOLECULAR ECOLOGY

Fine-Scale Genetic Structure ofMonilinia fructicolaDuring Brown Rot Epidemics Within Individual Peach Tree Canopies

(2015) S. E. Everhart et al.   PHYTOPATHOLOGY

Spatial and Temporal Analysis of Populations of the Sudden Oak Death Pathogen in Oregon Forests

(2015) Z. N. Kamvar et al.   PHYTOPATHOLOGY

Population structure of the invasive forest pathogenHymenoscyphus pseudoalbidus

(2014) Andrin Gross et al.   MOLECULAR ECOLOGY

Restriction site-associated DNA sequencing, genotyping error estimation andde novoassembly optimization for population genetic inference

(2014) A. Mastretta-Yanes et al.   Molecular Ecology Resources

The Irish potato famine pathogen Phytophthora infestans originated in central Mexico rather than the Andes

(2014) E. M. Goss et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

(2014) Zhian N. Kamvar et al.   PeerJ

Efficient multiplex simple sequence repeat genotyping of the oomycete plant pathogen Phytophthora infestans

(2013) Ying Li et al.   JOURNAL OF MICROBIOLOGICAL METHODS

The rise and fall of the Phytophthora infestans lineage that triggered the Irish potato famine

(2013) Kentaro Yoshida et al.   eLife

Genome Analyses of an Aggressive and Invasive Lineage of the Irish Potato Famine Pathogen

(2012) David E. L. Cooke et al.   PLoS Pathogens

Evolution and Population Genetics of Exotic and Re-Emerging Pathogens: Novel Tools and Approaches

(2011) Niklaus J. Grünwald et al.   Annual Review of Phytopathology

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

(2011) Thibaut Jombart et al.   BIOINFORMATICS

RADSeq: next-generation population genetics

(2011) J. W. Davey et al.   Briefings in Functional Genomics

Genome-wide genetic marker discovery and genotyping using next-generation sequencing

(2011) John W. Davey et al.   NATURE REVIEWS GENETICS

A Robust, Simple Genotyping-by-Sequencing (GBS) Approach for High Diversity Species

(2011) Robert J. Elshire et al.   PLoS One

Discriminant analysis of principal components: a new method for the analysis of genetically structured populations

(2010) Thibaut Jombart et al.   BMC GENETICS

Phytophthora-ID.org: A Sequence-Based Phytophthora Identification Tool

(2010) Niklaus J. Grünwald et al.   PLANT DISEASE

Population Genetic Analysis Infers Migration Pathways of Phytophthora ramorum in US Nurseries

(2009) Erica M. Goss et al.   PLoS Pathogens

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

(2008) Thibaut Jombart   BIOINFORMATICS

Maps of random walks on complex networks reveal community structure

(2008) M. Rosvall et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA