Richard A. Neher

11 papers Journal 10Unranked 1
YearRankTypeTitle / Venue / Authors
2025 J jnl
Estimating Re and overdispersion in secondary cases from the size of identical sequence clusters of SARS-CoV-2.
PLoS Comput. Biol.
Emma B. Hodcroft, Martin Wohlfender, Richard A. Neher, Julien Riou, Christian L. Althaus
2023 J jnl
Joint visualization of seasonal influenza serology and phylogeny to inform vaccine composition.
Frontiers Bioinform.
Jover Lee, James Hadfield, Allison Black, Thomas R. Sibley, Richard A. Neher, Trevor Bedford, John Huddleston
2022 J jnl
TreeKnit: Inferring ancestral reassortment graphs of influenza viruses.
PLoS Comput. Biol.
Pierre Barrat-Charlaix, Timothy G. Vaughan, Richard A. Neher
2021 J jnl
Augur: a bioinformatics toolkit for phylogenetic analyses of human pathogens.
J. Open Source Softw.
John Huddleston, James Hadfield, Thomas R. Sibley, Jover Lee, Kairsten Fay, Misja Ilcisin, Elias Harkins, Trevor Bedford, Richard A. Neher, Emma B. Hodcroft
2021 J jnl
Nextclade: clade assignment, mutation calling and quality control for viral genomes.
J. Open Source Softw.
Ivan Aksamentov, Cornelius Roemer, Emma B. Hodcroft, Richard A. Neher
2018 J jnl
Nextstrain: real-time tracking of pathogen evolution.
Bioinform.
James Hadfield, Colin Megill, Sidney M. Bell, John Huddleston, Barney Potter, Charlton Callender, Pavel Sagulenko, Trevor Bedford, Richard A. Neher
2017 J jnl
Estimating time of HIV-1 infection from next-generation sequence diversity.
PLoS Comput. Biol.
Vadim Puller, Richard A. Neher, Jan Albert
2015 J jnl
nextflu: real-time tracking of seasonal influenza virus evolution in humans.
Bioinform.
Richard A. Neher, Trevor Bedford
2012 J jnl
FFPopSim: an efficient forward simulation package for the evolution of large populations.
Bioinform.
Fabio Zanini, Richard A. Neher
2010 J jnl
Recombination Rate and Selection Strength in HIV Intra-patient Evolution.
PLoS Comput. Biol.
Richard A. Neher, Thomas Leitner
2009 — conf
Blind Decomposition of Spectral Imaging Microscopy: A Study on Artificial and Real Test Data.
ICA
Fabian J. Theis, Richard A. Neher, Andre Zeug