Mapping the Shapes of Phylogenetic Trees from Human and Zoonotic RNA Viruses

Modelling tree shape and structure in viral phylodynamics

(2013) S. D. W. Frost et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Bio.Phylo: A unified toolkit for processing, analyzing and visualizing phylogenetic trees in Biopython

(2012) Eric Talevich et al.   BMC BIOINFORMATICS

Phylogenetic Properties of RNA Viruses

(2012) Simone Pompei et al.   PLoS One

Diversitree: comparative phylogenetic analyses of diversification in R

(2012) Richard G. FitzJohn   Methods in Ecology and Evolution

Phylodynamic Inference and Model Assessment with Approximate Bayesian Computation: Influenza as a Case Study

(2012) Oliver Ratmann et al.   PLoS Computational Biology

ViralZone: a knowledge resource to understand virus diversity

(2010) Chantal Hulo et al.   NUCLEIC ACIDS RESEARCH

FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments

(2010) Morgan N. Price et al.   PLoS One

Quantitative Traits and Diversification

(2010) Richard G. FitzJohn   SYSTEMATIC BIOLOGY

Biopython: freely available Python tools for computational molecular biology and bioinformatics

(2009) P. J. A. Cock et al.   BIOINFORMATICS

Discovering the Phylodynamics of RNA Viruses

(2009) Edward C. Holmes et al.   PLoS Computational Biology

An Evolutionary Model-Based Algorithm for Accurate Phylogenetic Breakpoint Mapping and Subtype Prediction in HIV-1

(2009) Sergei L. Kosakovsky Pond et al.   PLoS Computational Biology

MPI for Python: Performance improvements and MPI-2 extensions

(2007) Lisandro Dalcín et al.   JOURNAL OF PARALLEL AND DISTRIBUTED COMPUTING