penetrance: Methods for Penetrance Estimation in Family-Based Studies

Implements statistical methods for estimating disease penetrance in family-based studies. Penetrance refers to the probability of disease§ manifestation in individuals carrying specific genetic variants. The package provides tools for age-specific penetrance estimation, handling missing data, and accounting for ascertainment bias in family studies. Cite as: Kubista, N., Braun, D. & Parmigiani, G. (2024) <doi:10.48550/arXiv.2411.18816>.

Version:	0.1.0
Depends:	R (≥ 3.5.0)
Imports:	clipp, stats, parallel, MASS, kinship2 (≥ 1.8.5), graphics, grDevices
Suggests:	knitr, rmarkdown, scales, ggplot2, roxygen2, testthat (≥ 3.0.0)
Published:	2025-03-03
DOI:	10.32614/CRAN.package.penetrance
Author:	Nicolas Kubista [aut, cre], BayesMendel Lab [aut]
Maintainer:	Nicolas Kubista <bmendel at jimmy.harvard.edu>
License:	GPL-3
URL:	https://github.com/nicokubi/penetrance, https://nicokubi.github.io/penetrance/
NeedsCompilation:	no
SystemRequirements:	C++11
Materials:	README
CRAN checks:	penetrance results

Documentation:

Reference manual:	penetrance.pdf
Vignettes:	Simulation Study with penetrance (source, R code) Simulation study from empirical data with penetrance (source, R code) Penetrance Estimation with penetrance (source, R code)

Downloads:

Package source:	penetrance_0.1.0.tar.gz
Windows binaries:	r-devel: penetrance_0.1.0.zip, r-release: penetrance_0.1.0.zip, r-oldrel: penetrance_0.1.0.zip
macOS binaries:	r-devel (arm64): penetrance_0.1.0.tgz, r-release (arm64): penetrance_0.1.0.tgz, r-oldrel (arm64): penetrance_0.1.0.tgz, r-devel (x86_64): penetrance_0.1.0.tgz, r-release (x86_64): penetrance_0.1.0.tgz, r-oldrel (x86_64): penetrance_0.1.0.tgz

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