Covidex: An ultrafast and accurate tool for SARS-CoV-2 subtyping

Recognizing species as a new focus of virus research

(2021) Alexander E. Gorbalenya et al.   PLoS Pathogens

The species Severe acute respiratory syndrome-related coronavirus: classifying 2019-nCoV and naming it SARS-CoV-2

(2020)   Nature Microbiology

Machine learning using intrinsic genomic signatures for rapid classification of novel pathogens: COVID-19 case study

(2020) Gurjit S. Randhawa et al.   PLoS One

A dynamic nomenclature proposal for SARS-CoV-2 lineages to assist genomic epidemiology

(2020) Andrew Rambaut et al.   Nature Microbiology

Nextstrain: real-time tracking of pathogen evolution

(2018) James Hadfield et al.   BIOINFORMATICS

An open-source k-mer based machine learning tool for fast and accurate subtyping of HIV-1 genomes

(2018) Stephen Solis-Reyes et al.   PLoS One

ranger: A Fast Implementation of Random Forests for High Dimensional Data in C++ and R

(2017) Marvin N. Wright et al.   Journal of Statistical Software