FAVITES (FrAmework for VIral Transmission and Evolution Simulation)
FASTQ-to-CodFreq pipeline for HIV-1 and SARS-CoV-2
ClusterV: finding HIV quasispecies and drug resistance from ONT sequencing data
Tutorial materials as referenced in IDM's documentation for EMOD, an agent-based disease dynamics model.
High accuracy single molecule Nanopore reads using the MrHAMER pipeline
HIV-64148, an integration of multiple long-read genome assemblers with a pipeline for analysis of HIV-1 genomic data from Oxford Nanopore Sequencing Technology or PacBio Real-Time (SMRT) Sequencing technology.
Explainable AI system for HIV drug resistance prediction using ensemble machine learning and SHAP-based genomic interpretability. HIVゲノム配列から薬剤耐性を予測し、SHAP解析による説明可能AIを実現する次世代バイオインフォマティクスシステム。
Modeling the HIV, AIDS virus based off of the SIR model. Differential equations and attempt at time delays
(P.I. Max Essex) Botswana Combination Prevention Project
Clinical decision support for LAI-PrEP bridge period
USI NLP master's project in collaboration with WHO. Agentic skill that generates source-attributed country profiles for WHO DAK localisation.
Retrospective HIV Cohort for Diabetes Research - Tanzania
Functions and scripts used in a pipeline to find novel drug resistance associated mutations in HIV pol-RT
Mobile Health (mHealth) Viral Diagnostics Enabled with Adaptive Adversarial Learning.
Project Genesis-HIV is a high-fidelity digital twin of the HIV virus for therapy testing. This platform integrates multiple scales of HIV biology.
SQL + Tableau analysis of WHO global TB burden data: HIV/TB coinfection, incidence trends, and Lesotho benchmarked against the world.
Deterministic, interpretable genome→phenotype decoder: calls antibiotic/antiviral/antifungal resistance from DNA + names the exact genes/mutations driving each call. Spans bacteria, M. tuberculosis, fungi, HIV-1 & SARS-CoV-2 — independently validated on FREE measured wet-lab labels (EBI AMR Portal, Stanford HIVDB). Not a clinical tool.
Proteome-wide detection of immunogenic hotspots
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