Package: ICBioMark
Title: Data-Driven Design of Targeted Gene Panels for Estimating
        Immunotherapy Biomarkers
Version: 0.1.5
Authors@R: 
    c(person(given = "Jacob R.",
           family = "Bradley",
           role = c("aut", "cre"),
           email = "cobrbradley@gmail.com",
           comment = c(ORCID = "0000-0003-1616-4969")),
      person(given = "Timothy I.",
           family = "Cannings",
           role = c("aut"),
           email = "Timothy.cannings@sms.ed.ac.uk",
           comment = c(ORCID = "0000-0002-2111-4168")))
Description: 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.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.1.1
Suggests: testthat (>= 2.1.0)
Imports: stats, utils, glmnet, Matrix, dplyr, purrr, stringr (>=
        1.4.0), latex2exp, matrixStats, ggplot2, gglasso, PRROC
Depends: R (>= 2.10)
Config/pak/sysreqs: libicu-dev
Repository: https://cobrbra.r-universe.dev
Date/Publication: 2023-04-24 16:36:19 UTC
RemoteUrl: https://github.com/cobrbra/icbiomark
RemoteRef: HEAD
RemoteSha: e5040a98925cb52a2169575ed6ecef718ba86523
NeedsCompilation: no
Packaged: 2026-10-09 09:26:07 UTC; root
Author: 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>)
Maintainer: Jacob R. Bradley <cobrbradley@gmail.com>