GuoXiang9399
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Datasets for https://github.com/nextstrain/nextclade
A Shiny R based application that allows searching for published/novel primer pairs targeting the DENV fragment and visualizing their alignment to the reference genome
A unified global genotyping framework of dengue virus serotype-1 for coordinated proposal of stratified surveillance
A shiny app for Review DENV epidemiological research
A R Shiny App for assigning DENV sequences to serotype, genotype, subgenotype, and clade.
pipeline for training pangoLEARN model
Software package for assigning SARS-CoV-2 genome sequences to global lineages.
Repository for storing latest model, protobuf, designation hash and alias files for pangolin assignments
R package for constructing geodesic buffers using metric radii
Evolutionary velocity with protein language models
Store of the trained model for pangolin to access.
R package for studying environmental rasters and phylogenetic informed movements (Dellicour et al. 2016, Bioinformatics; Dellicour et al. 2016, BMC Bioinf.)
Uniform sampling of transmission trees for a fixed pathogen phylogeny
Exploratory analyses for the phylogenetic comparative method
Nextflow pipeline for analysis of direct RNA Nanopore reads
A versatile sequenced read processor for nanopore direct RNA sequencing
Supplemental code for "the architecture of SARS-CoV-2 transcriptome" paper
Data used for analyses in "Genomic Epidemiology of SARS-CoV-2 in Guangdong Province, China" (Lu et al., Cell, 2020) https://doi.org/10.1016/j.cell.2020.04.023
R package to generate the same BEAST2 XML parameter files as generated by BEAUti 2