Data-Driven Design of Targeted Gene Panels for Estimating Immunotherapy Biomarkers R package ICBioMark version 0.1.4 CRAN Task View: Omics (https://CRAN.R-project.org/view=Omics) Implementation of the methodology proposed in 'Data-driven design of targeted gene panels for estimating immunotherapy biomarkers', Bradley and Cannings (2021) <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. Software Depends: R (>= 2.10) Imports: stats, utils, glmnet, Matrix, dplyr, purrr, latex2exp, matrixStats, ggplot2, gglasso, PRROC Suggests: testthat (>= 2.1.0) Jacob R. Bradley <cobrbradley@gmail.com> Comprehensive R Archive Network (CRAN) Jacob R. Bradley [aut, cre] (ORCID: <https://orcid.org/0000-0003-1616-4969>), Timothy I. Cannings [aut] (ORCID: <https://orcid.org/0000-0002-2111-4168>) MIT + file LICENSE (https://CRAN.R-project.org/package=ICBioMark/LICENSE) 2021-11-15 application/tgz https://CRAN.R-project.org/package=ICBioMark doi:10.32614/CRAN.package.ICBioMark