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vaccine

Statistical tools for immune correlates analysis of vaccine clinical trial data

Overview

vaccine is an open-source R package containing various semiparametric and nonparametric statistical tools for immune correlates analysis of vaccine clinical trial data. This includes calculation of summary statistics and estimation of risk, vaccine efficacy, controlled risk, and controlled vaccine efficacy.

Installation

The latest stable version of vaccine can be installed from CRAN using install.packages():

install.packages("vaccine")

The current development version can be installed using devtools::install_github():

devtools::install_github(repo="Avi-Kenny/vaccine")

Documentation

The full package documentation can be found at https://avi-kenny.github.io/vaccine/.

Bugs reports and feature requests

To submit a bug report or request a new feature, please submit a new GitHub Issue.

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Version

Install

install.packages('vaccine')

Monthly Downloads

482

Version

1.3.0

License

GPL-3

Maintainer

Avi Kenny

Last Published

January 7th, 2025

Functions in vaccine (1.3.0)

params_ce_np

Set parameters controlling nonparametric estimation of controlled effect curves
est_overall

Estimate overall risk and vaccine efficacy
diagnostics

Run diagnostics
params_ce_cox

Set parameters controlling Cox model estimation of controlled effect curves
summary_stats

Calculate summary statistics
vaccine-package

vaccine: Statistical Tools for Immune Correlates Analysis of Vaccine Clinical Trial Data
load_data

Load and format data object
est_ce

Estimate controlled effect curves
as_table

Create table of estimates
params_med_np

Set parameters controlling nonparametric estimation of mediation effects
est_med

Estimate mediation effects
plot_ce

Plotting controlled effect curves
trim

Trim data for plotting/reporting
hvtn505

HVTN 505 Dataset