Repositories list

• hivtrace-viz

  Public
  JavaScript

  •9•7•0•3•Updated Oct 3, 2024Oct 3, 2024

• cawlign

  Public
  C++

  •

  MIT License

  •2•2•2•0•Updated Oct 2, 2024Oct 2, 2024

• hivclustering

  Public
  Infer molecular transmission networks from pairwise distance files (part of HIV-TRACE)

  Python

  •5•2•10•1•Updated Oct 1, 2024Oct 1, 2024

• MSS-results

  Public
  HyPhy

  •1•0•0•0•Updated Oct 1, 2024Oct 1, 2024

• datamonkey-js

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

  JavaScript

  •

  Other

  •9•10•0•4•Updated Sep 26, 2024Sep 26, 2024

• hyphy

  Public
  HyPhy: Hypothesis testing using Phylogenies

  sciencec-plus-plusbioinformatics+ 4evolutionstatistical-methodsphylogeneticscomparative-genomics

  HyPhy

  •

  Other

  •69•211•13•1•Updated Sep 14, 2024Sep 14, 2024

• BioExt

  Public
  A few handy bioinformatics tools not already within BioPython

  Python

  •12•3•1•0•Updated Aug 29, 2024Aug 29, 2024

• hivtrace

  Public
  JavaScript

  •

  MIT License

  •15•22•5•1•Updated Aug 16, 2024Aug 16, 2024

• selection-tutorial

  Public
  Creative Commons Zero v1.0 Universal

  •1•3•5•0•Updated Aug 3, 2024Aug 3, 2024

• Endothermy

  Public
  HyPhy

  •2•0•0•0•Updated Jul 31, 2024Jul 31, 2024

• LabSite

  Public
  Website for the ACME Lab

  JavaScript

  •

  MIT License

  •7•1•0•20•Updated Jul 10, 2024Jul 10, 2024

• idepi

  Public
  IDentify EPItopes

  Python

  •

  GNU General Public License v3.0

  •4•4•1•1•Updated Jun 17, 2024Jun 17, 2024

• tn93

  Public
  TN93 fast distance calculator

  C++

  •

  MIT License

  •7•15•10•1•Updated Jun 10, 2024Jun 10, 2024

• hyphy-analyses

  Public
  HyPhy standalone analyses

  PostScript

  •

  MIT License

  •17•38•34•0•Updated Jun 3, 2024Jun 3, 2024

• hyphy-python

  Public
  C++

  •

  Other

  •1•0•0•2•Updated May 31, 2024May 31, 2024

• cve-site

  Public
  Website for CVE

  Svelte

  •1•0•0•0•Updated May 17, 2024May 17, 2024

• ogv-dating

  Public
  Scripts and results for estimating the dates of integrated HIV viruses using RNA samples from the same host

  HyPhy

  •

  MIT License

  •3•5•2•0•Updated May 2, 2024May 2, 2024

• autotune-data

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

  0•0•0•0•Updated Apr 29, 2024Apr 29, 2024

• phylotree.js

  Public
  Interactive viewer of phylogenetic trees

  d3jsvizualisationphylogenetic-trees

  JavaScript

  •

  MIT License

  •77•169•53•5•Updated Apr 4, 2024Apr 4, 2024

• autotune-paper

  Public
  TeX

  •0•0•0•0•Updated Mar 12, 2024Mar 12, 2024

• hivtrace-locales

  Public
  Repository of hivtrace translations

  0•0•0•0•Updated Mar 10, 2024Mar 10, 2024

• datamonkey-js-server

  Public
  HyPhy

  •7•3•0•1•Updated Mar 3, 2024Mar 3, 2024

• hyphy-vision

  Public
  Visualize HyPhy results in your browser

  JavaScript

  •12•4•1•4•Updated Mar 1, 2024Mar 1, 2024

• pub-data

  Public
  Publically available alignments (and trees) from published dN/dS analyses

  MIT License

  •0•2•0•0•Updated Dec 19, 2023Dec 19, 2023

• alignment.js

  Public
  Javascript alignment viewer

  JavaScript

  •

  MIT License

  •7•8•11•17•Updated Nov 29, 2023Nov 29, 2023

• veg.github.io

  Public
  Veg pages

  CSS

  •0•0•0•0•Updated Aug 19, 2023Aug 19, 2023

• biosampleMeta

  Public
  Some biosample metadata scraping scripts for the ARGOS project

  Python

  •0•0•0•0•Updated Jun 23, 2023Jun 23, 2023

• dwh

  Public
  TypeScript

  •0•0•0•0•Updated May 29, 2023May 29, 2023

• datamonkey-blog

  Public
  SCSS

  •0•0•0•22•Updated Mar 4, 2023Mar 4, 2023

• SARS-CoV-2-Dashboard

  Public
  JavaScript

  •

  MIT License

  •1•0•0•16•Updated Jan 7, 2023Jan 7, 2023