Implementation of the methodology proposed in 'Data-driven design of targeted gene panels for estimating immunotherapy biomarkers', Bradley and Cannings (2021) <doi:10.48550/arXiv.2102.04296>. This package allows the user to fit generative models of mutation from an annotated mutation dataset, and then further to produce tunable linear estimators of exome-wide biomarkers. It also contains functions to simulate mutation annotated format (MAF) data, as well as to analyse the output and performance of models.
Version: 0.1.4 Depends: R (≥ 2.10) Imports: stats, utils, glmnet, Matrix, dplyr, purrr, latex2exp, matrixStats, ggplot2, gglasso, PRROC Suggests: testthat (≥ 2.1.0) Published: 2021-11-15 DOI: 10.32614/CRAN.package.ICBioMark Author: Jacob R. Bradley [aut, cre], Timothy I. Cannings [aut] Maintainer: Jacob R. Bradley <cobrbradley at gmail.com> License: MIT + file LICENSE NeedsCompilation: no Materials: README NEWS In views: Omics CRAN checks: ICBioMark results Documentation: Downloads: Linking:Please use the canonical form https://CRAN.R-project.org/package=ICBioMark to link to this page.
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