St. JudeOne unified Shiny app and a reproducible pipeline for tracking amino acid variation, clade evolution, and lineage patterns across respiratory viruses and Nextclade3-supported pathogens — switch pathogens from a single interface.
Developed by Center for Applied Bioinformatics @ St. Jude Children's Research Hospital.
One public Shiny application for scanning clade-aware amino acid changes across respiratory virus datasets and other Nextclade3-supported pathogens — pick a pathogen from the same interface.
Explore RSV, SARS-CoV-2, and human/avian influenza datasets in one dedicated app.
Visualize amino acid variation across RSV clades and lineages.
Data source: Nextstrain
Track amino acid changes across SARS-CoV-2 clades.
Data source: Nextstrain
Explore amino acid variation in human influenza viruses.
Data source: GISAID
A flexible viewer for NextAA outputs from any supported Nextstrain dataset.
Universal Exploreriation for NextAA outputs from any Nextstrain dataset supported by Nextclade3. Current data: Chikungunya virus.
Data source: Nextstrain
The RVEAtlas Skill helps AI coding agents install and run RVE Atlas locally — one app covering COVID, RSV, human influenza, and other pathogens (e.g. CHIKV) under a universal configuration. It can preview the setup with a dry run, download the app code and release data, install missing R packages, and launch the app in a browser.
Use the RVEAtlas skill to install and run RVE Atlas locally. Install it into ~/RVEAtlas. Start with a dry run, then do the real install if the dry run looks correct.
The workflow that transforms global sequence resources into amino acid annotations and clade-aware explorer inputs.
From global sequence datasets to accessible visual summaries for pathogen evolution research.
RVE Atlas brings together one public visualization app and a processing pipeline so researchers can move quickly from clade context to amino acid variation patterns across COVID, RSV, human influenza, and Nextstrain pathogens supported by Nextclade3.
