Variational phylodynamic inference using pandemic-scale data
C Ki, J Terhorst - Molecular Biology and Evolution, 2022 - academic.oup.com
The ongoing global pandemic has sharply increased the amount of data available to
researchers in epidemiology and public health. Unfortunately, few existing analysis tools are …
researchers in epidemiology and public health. Unfortunately, few existing analysis tools are …
F1ALA: ultrafast and memory-efficient ancestral lineage annotation applied to the huge SARS-CoV-2 phylogeny
Y Ye, MH Shum, I Wu, C Chau, N Zhao… - Virus …, 2024 - academic.oup.com
The unprecedentedly large size of the global SARS-CoV-2 phylogeny makes any
computation on the tree difficult. Lineage identification (eg the PANGO nomenclature for …
computation on the tree difficult. Lineage identification (eg the PANGO nomenclature for …
Development of avian influenza A (H5) virus datasets for Nextclade enables rapid and accurate clade assignment
The ongoing panzootic of highly pathogenic avian influenza (HPAI) A (H5) viruses is the
largest in history, with unprecedented transmission to multiple mammalian species. Avian …
largest in history, with unprecedented transmission to multiple mammalian species. Avian …
Scalable method for exploring phylogenetic placement uncertainty with custom visualizations using treeio and ggtree
In metabarcoding research, such as taxon identification, phylogenetic placement plays a
critical role. However, many existing phylogenetic placement methods lack comprehensive …
critical role. However, many existing phylogenetic placement methods lack comprehensive …