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alignment.js

Javascript alignment viewer

analyses

Various molecular evolutionary analyses implemented in HyPhy batch language.

autotune-data

This repository contains datasets utilized in the AUTO-TUNE manuscript for inferring HIV transmission clusters based on genetic distances.

autotune-paper

bcell-phylo

Take antibody sequence data from JSON to FASTA format

bioconda-recipes

Conda recipes for the bioconda channel.

bioext

A few handy bioinformatics tools not already within BioPython

biosamplemeta

Some biosample metadata scraping scripts for the ARGOS project

busted

Scripts, processing modules and test data for BUSTED

busted_modeltest

cartas

cawlign

coronavirus-comparative

create-phylo-app

Example repository to set up a CLI phylotree app

cve-site

Website for CVE

datamonkey-blog

datamonkey-js

Datamonkey - Run state-of-the-art statistical models through the comfort of your browser

datamonkey-js-server

dwh

edge-filtering

Edge Filtering with HIV-TRACE

evogenomics_hyphy

flea-pipeline

A pipeline for long-read sequencing data.

flea-server

A simple server for the FLEA web app.

flea-web-app

A client-side web app for visualizing FLEA pipeline analysis results.

galaxy

Data intensive science for everyone.

galaxy-config

configuration files and instructions for galaxy.hyphy.org

galaxy-landing-page

Center pane for the VEG Galaxy server

github-action-benchmark

GitHub Action for continuous benchmarking to keep performance

haplotype-reconstruction

hiv-ngs

HIV NGS Processing pipeline