| A daily-updated database and tools for comprehensive SARS-CoV-2 mutation-annotated trees J McBroome, B Thornlow, AS Hinrichs, A Kramer, N De Maio, N Goldman, ... Molecular biology and evolution 38 (12), 5819-5824, 2021 | 67 | 2021 |
| Transposable elements drive intron gain in diverse eukaryotes L Gozashti, SW Roy, B Thornlow, A Kramer, M Ares Jr, R Corbett-Detig Proceedings of the National Academy of Sciences 119 (48), e2209766119, 2022 | 22 | 2022 |
| matOptimize: a parallel tree optimization method enables online phylogenetics for SARS-CoV-2 C Ye, B Thornlow, A Hinrichs, A Kramer, C Mirchandani, D Torvi, ... Bioinformatics 38 (15), 3734-3740, 2022 | 17 | 2022 |
| Online phylogenetics using parsimony produces slightly better trees and is dramatically more efficient for large SARS-CoV-2 phylogenies than de novo and maximum-likelihood … B Thornlow, A Kramer, C Ye, N De Maio, J McBroome, AS Hinrichs, ... BioRxiv, 2021 | 9 | 2021 |
| Treenome Browser: co-visualization of enormous phylogenies and millions of genomes AM Kramer, T Sanderson, R Corbett-Detig Bioinformatics 39 (1), btac772, 2023 | 5 | 2023 |
| Pandemic-scale phylogenetics C Ye, B Thornlow, A Kramer, J McBroome, A Hinrichs, R Corbett-Detig, ... bioRxiv, 2021 | 5 | 2021 |
| Online Phylogenetics with matOptimize Produces Equivalent Trees and is Dramatically More Efficient for Large SARS-CoV-2 Phylogenies than de novo and … AM Kramer, B Thornlow, C Ye, N De Maio, J McBroome, AS Hinrichs, ... Systematic Biology 72 (5), 1039-1051, 2023 | 4 | 2023 |
| ShUShER: private browser-based placement of sensitive genome samples on phylogenetic trees A Kramer, Y Turakhia, R Corbett-Detig Journal of Open Source Software 6 (66), 3677, 2021 | | 2021 |
