The Bacteria Genome Pipeline (BAGEP): an automated, scalable workflow for bacteria genomes with Snakemake

por Olawoye, Idowu B., Frost, Simon D.W., Happi, Christian T.
Publicado 2020

RhierBAPS: An R implementation of the population clustering algorithm hierBAPS

por Tonkin-Hill, Gerry, Lees, John A., Bentley, Stephen D., Frost, Simon D.W., Corander, Jukka
Publicado 2018

Respondent driven sampling—where we are and where should we be going?

por White, Richard G, Lansky, Amy, Goel, Sharad, Wilson, David, Hladik, Wolfgang, Hakim, Avi, Frost, Simon DW
Publicado 2012

Eight challenges in phylodynamic inference

por Frost, Simon D.W., Pybus, Oliver G., Gog, Julia R., Viboud, Cecile, Bonhoeffer, Sebastian, Bedford, Trevor
Publicado 2015

Evaluation of the role of location and distance in recruitment in respondent-driven sampling

por McCreesh, Nicky, Johnston, Lisa G, Copas, Andrew, Sonnenberg, Pam, Seeley, Janet, Hayes, Richard J, Frost, Simon DW, White, Richard G
Publicado 2011

Assessing the use of hospital staff influenza-like absence (ILA) for enhancing hospital preparedness and national surveillance

por Drumright, Lydia N, Frost, Simon DW, Elliot, Alex J, Catchpole, Mike, Pebody, Richard G, Atkins, Mark, Harrison, John, Parker, Penny, Holmes, Alison H
Publicado 2015

HIV-1 Transmission linkages among persons with incident infection to inform public health surveillance

por Dennis, Ann M., Frost, Simon D.W., Enders, Kimberly, Cressman, Andrew E., Volz, Erik, Adams, Nicole, Miller, William C., Cohen, Myron S., Mobley, Victoria, Samoff, Erika, Eron, Joseph J.
Publicado 2021

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

por Kosakovsky Pond, Sergei L., Posada, David, Stawiski, Eric, Chappey, Colombe, Poon, Art F.Y., Hughes, Gareth, Fearnhill, Esther, Gravenor, Mike B., Leigh Brown, Andrew J., Frost, Simon D.W.
Publicado 2009

HIV-1 Transmission Clustering and Phylodynamics Highlight the Important Role of Young Men Who Have Sex with Men

por Dennis, Ann M., Volz, Erik, Frost, Simon D.W., Hossain, A.S. Md. Mukarram, Poon, Art F.Y., Rebeiro, Peter F., Vermund, Sten H., Sterling, Timothy R., Kalish, Marcia L.
Publicado 2018

VGEA: an RNA viral assembly toolkit

por Oluniyi, Paul E., Ajogbasile, Fehintola, Oguzie, Judith, Uwanibe, Jessica, Kayode, Adeyemi, Happi, Anise, Ugwu, Alphonsus, Olumade, Testimony, Ogunsanya, Olusola, Eromon, Philomena Ehiaghe, Folarin, Onikepe, Frost, Simon D.W., Heeney, Jonathan, Happi, Christian T.
Publicado 2021

Immune-driven recombination and loss of control after HIV superinfection

por Streeck, Hendrik, Li, Bin, Poon, Art F.Y., Schneidewind, Arne, Gladden, Adrianne D., Power, Karen A., Daskalakis, Demetre, Bazner, Suzane, Zuniga, Rosario, Brander, Christian, Rosenberg, Eric S., Frost, Simon D.W., Altfeld, Marcus, Allen, Todd M.
Publicado 2008

Producing polished prokaryotic pangenomes with the Panaroo pipeline

por Tonkin-Hill, Gerry, MacAlasdair, Neil, Ruis, Christopher, Weimann, Aaron, Horesh, Gal, Lees, John A., Gladstone, Rebecca A., Lo, Stephanie, Beaudoin, Christopher, Floto, R. Andres, Frost, Simon D.W., Corander, Jukka, Bentley, Stephen D., Parkhill, Julian
Publicado 2020

Bat pluripotent stem cells reveal unusual entanglement between host and viruses

por Déjosez, Marion, Marin, Arturo, Hughes, Graham M., Morales, Ariadna E., Godoy-Parejo, Carlos, Gray, Jonathan L., Qin, Yiren, Singh, Arun A., Xu, Hui, Juste, Javier, Ibáñez, Carlos, White, Kris M., Rosales, Romel, Francoeur, Nancy J., Sebra, Robert P., Alcock, Dominic, Volkert, Thomas L., Puechmaille, Sébastien J., Pastusiak, Andrzej, Frost, Simon D.W., Hiller, Michael, Young, Richard A., Teeling, Emma C., García-Sastre, Adolfo, Zwaka, Thomas P.
Publicado 2023