V-pipe is a pipeline designed for analysing NGS data of short viral genomes

Source files for building the IDM EMOD disease transmission model.

The Visualization Multitool for Molecular Epidemiology and Bioinformatics

FAVITES (FrAmework for VIral Transmission and Evolution Simulation)

Network Models of HIV Transmission Dynamics among MSM and Heterosexuals

Point of care system for AMPATH clinics

FASTQ-to-CodFreq pipeline for HIV-1 and SARS-CoV-2

A fast and scalable CUDA implementation to conduct highly parallelized evolutionary tests on large scale genomic data.

The Visualization Multitool for Molecular Epidemiology and Bioinformatics

ClusterV: finding HIV quasispecies and drug resistance from ONT sequencing data

Clinical Trial Risk Tool for analysing clinical trial protocols using natural language processing and assessing the risk of ending uninformatively, developed by Fast Data Science

The diversity of RNA structural elements and their documented role in human diseases make RNA an attractive therapeutic target. However, progress in drug discovery and development has been hindered by challenges in the determination of high-resolution RNA structures and a limited understanding of the parameters that drive RNA recognition by smal…

Incidence Estimation Tools

A repository for the Advanced Programming Tutorial that teaches you how to develop an interactive model using Shiny

a platform for the collection, storage, retrieval, and analysis of experimental data for laboratory workflows

RocaSec: A standalone GUI-based package for robust co-evolutionary analysis of proteins

This repo contains the data and software used to run the analyses in the "Using machine learning and Big data to explore the drug resistance landscape in HIV"

Viral Load Sample Management - Machine Interfacing

A simple, open source Sample Management System for Viral Load, EID and Covid-19 testing.

Current development version of EvoNetHIV package