ushr

ushr models longitudinal HIV viral-load decline during antiretroviral therapy (ART) using a biphasic exponential decay framework to estimate biological parameters such as infected-cell lifespans and time to viral suppression.

Key Features:

• Modeling Framework: Implements the canonical biphasic exponential decay model for HIV viral-load dynamics during ART to estimate lifespans of short- and long-lived infected cells and viral decay rates.
• Data Processing Tools: Provides functions to preprocess and format clinical longitudinal viral-load data for computational analysis and model fitting.
• Parameter Estimation: Fits longitudinal viral-load measurements to infer parameters including infected-cell lifespans, decay rates, and time to suppression below detection thresholds.
• Visualization and Summary Tools: Generates visualizations and summary outputs of fitted models and parameter estimates for assessment of model fit and viral dynamics.

Scientific Applications:

• Clinical HIV dynamics analysis: Quantitative analysis of longitudinal viral-load data from patients on ART to characterize viral decay kinetics.
• Parameter inference for biological insight: Estimation of infected-cell lifespans and decay rates to inform studies of viral persistence and treatment effects.
• Prediction of suppression timelines: Prediction of time to viral suppression below specified detection thresholds for individuals or cohorts.

Methodology:

Fitting longitudinal viral-load measurements to a biphasic exponential decay model to estimate decay rates and infected-cell lifespans.