Repositories list

• hyphy-analyses

  Public
  HyPhy standalone analyses

  PostScript

  •

  MIT License

  •17•40•44•0•Updated Mar 23, 2025Mar 23, 2025

• hivtrace

  Public
  JavaScript

  •

  MIT License

  •14•24•5•1•Updated Mar 21, 2025Mar 21, 2025

• hivtrace-viz

  Public
  JavaScript

  •9•8•0•4•Updated Mar 20, 2025Mar 20, 2025

• hyphy

  Public
  HyPhy: Hypothesis testing using Phylogenies

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

  HyPhy

  •

  Other

  •69•230•23•0•Updated Mar 19, 2025Mar 19, 2025

• api-datamonkey

  Public
  API Spec for Datamonkey3

  C#

  •

  MIT License

  •0•0•1•0•Updated Mar 14, 2025Mar 14, 2025

• service-datamonkey

  Public
  REST service driving Datamonkey3

  Go

  •

  MIT License

  •0•0•1•0•Updated Mar 14, 2025Mar 14, 2025

• service-slurm

  Public
  A test Docker build for SLURM with the SLURM REST API configured.

  Dockerfile

  •

  MIT License

  •4•0•0•0•Updated Mar 7, 2025Mar 7, 2025

• CPE

  Public
  Temple CPE Hugo Site

  TeX

  •0•0•0•0•Updated Mar 7, 2025Mar 7, 2025

• hyphy-eye

  Public
  Playing w Observable Framework

  JavaScript

  •1•0•2•1•Updated Feb 27, 2025Feb 27, 2025

• cawlign

  Public
  C++

  •

  MIT License

  •2•3•2•0•Updated Feb 18, 2025Feb 18, 2025

• datamonkey-js

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

  JavaScript

  •

  Other

  •9•10•3•1•Updated Feb 18, 2025Feb 18, 2025

• MSS-results

  Public
  HyPhy

  •1•0•0•0•Updated Feb 3, 2025Feb 3, 2025

• phylotree.js

  Public
  Interactive viewer of phylogenetic trees

  d3jsvizualisationphylogenetic-trees

  JavaScript

  •

  MIT License

  •78•171•55•6•Updated Jan 28, 2025Jan 28, 2025

• hyphy-site

  Public
  HyPhy Markdown Site

  CSS

  •

  MIT License

  •8•0•1•0•Updated Jan 22, 2025Jan 22, 2025

• datamonkey-js-server

  Public
  HyPhy

  •7•3•0•1•Updated Jan 13, 2025Jan 13, 2025

• datamonkey-docs

  Public
  Documentation for Datamonkey/HyPhy

  hyphydatamonkey

  TypeScript

  •1•0•0•1•Updated Jan 8, 2025Jan 8, 2025

• hivclustering

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

  Python

  •5•3•10•1•Updated Jan 6, 2025Jan 6, 2025

• hyphy-vision

  Public
  Visualize HyPhy results in your browser

  JavaScript

  •12•4•1•4•Updated Nov 26, 2024Nov 26, 2024

• BioExt

  Public
  A few handy bioinformatics tools not already within BioPython

  Python

  •12•2•1•1•Updated Aug 29, 2024Aug 29, 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

  •8•16•10•1•Updated Jun 10, 2024Jun 10, 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

• 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