This repository houses modular workflows for the processing of correlates of risk / protection data, exploratory tabular and graphical analyses of correlates immunogenicity, and the automated reporting of analytic results. It serves as a generalized suite of tools, based on the analyses originally designed for the USG Biostatistics Response Team's analysis of COVID-19 vaccine efficacy trials (archived here). See below for brief descriptions of each of the analysis modules. This repository is designed as the first part of an analytic pipeline, with the correlates reporting module serving as a downstream component.
gh-pages
branch.
- Immunogenicity Description
immuno_tabular: Tabular descriptions of marker immunogenicity.immuno_graphical: Graphical descriptions of marker immunogenicity.
- Baseline Risk Score Evaluation
riskscore_baseline: Super Learner baseline risk score for exposure.
- Code style guide, with some modifications;
this will largely be enforcd with
styler. - Project organization: mostly independent subdirectories, each incorporating
herefor path resolution. - Package version control and virtual environments using
renv. - Code review procedure: see our contribution guidelines.
The contents of this repository are distributed under the GPL-3 license. See
file LICENSE.md
for details.