Package: asuri
Date: 2024-04-03
Type: Package
Title: Analysis of SUrvival and RIsk prediction in patients based on
        gene signatures
Version: 1.0.0
Description: The ASURI (Analysis of SUrvival and patients RIsk prediction based on gene signatures) package discovers marker genes that are related to risk prediction capabilities and to a clinical variable of interest. It uses two main steps, including subsampling glmnet and unicox. The package implements robust functions to discover survival markers related to a clinical phenotype and to predict a risk score, allowing to study the patient's risk based on the gene signatures. Several plots are provided to visualise the relevance of the genes, the risk score, and patient stratification, as well as a robust version of the Kaplan-Meier curves.
Authors@R: c(
  person(given = "Alberto",
         family = "Berral-Gonzalez",
         email = "aberralgonzalez@gmail.com",
         role = c("aut", "cre", "ctb"),
         comment = c(ORCID = "0000-0001-8388-6051")),
  person(given = "María",
         family = "Sanchez-Martin",
         email = "msanmar@usal.es",
         role = c("aut", "ctb"),
         comment = c(ORCID = "0009-0006-5549-6113")),
  person(given = "Santiago",
         family = "Bueno-Fortes",
         role = c("aut", "ctb"),
         comment = c(ORCID = "0000-0001-7141-2860")),
  person(given = "Natalia",
         family = "Alonso-Moreda",
         role = c("aut", "ctb"),
         comment = c(ORCID = "0000-0002-2347-5127")),
  person(given = "Jose Manuel",
         family = "Sanchez-Santos",
         role = c("aut", "ctb"),
         comment = c(ORCID = "0000-0002-7434-7598")),
  person(given = "Manuel",
         family = "Martin-Merino Acera",
         role = c("aut", "ctb"),
         comment = c(ORCID = "0000-0002-5914-2332")),
  person(given = "Javier", 
         family = "De Las Rivas",
         email = "jrivas@usal.es",
         role = c("aut", "ctb"),
         comment = c(ORCID = "0000-0002-0984-9946"))
  )
License: LGPL-3 + file LICENSE
Depends: R (>= 4.5.0), stats, methods
Imports: SummarizedExperiment, spsUtil, lubridate, survival, glmnet,
        siggenes, survcomp, scales, ROCR, ggplot2, grDevices, graphics,
        utils, Rdpack
Suggests: BiocStyle, knitr, formatR, rmarkdown, magick, devtools
biocViews: Software, StatisticalMethod, WorkflowStep, GeneExpression,
        Microarray, DifferentialExpression, GenePrediction, Regression,
        Survival, ExonArray, MultipleComparison
URL: https://github.com/jdelasrivas-lab/asuri
BugReports: https://github.com/jdelasrivas-lab/asuri/issues
BiocType: Software
ZipData: TRUE
RoxygenNote: 7.3.3
NeedsCompilation: no
RdMacros: Rdpack
Encoding: UTF-8
VignetteBuilder: knitr
LazyData: false
git_url: https://git.bioconductor.org/packages/asuri
git_branch: RELEASE_3_23
git_last_commit: 9c8ad97
git_last_commit_date: 2026-04-28
Repository: Bioconductor 3.23
Date/Publication: 2026-04-28
Packaged: 2026-04-28 21:25:53 UTC; biocbuild
Author: Alberto Berral-Gonzalez [aut, cre, ctb] (ORCID:
    <https://orcid.org/0000-0001-8388-6051>),
  María Sanchez-Martin [aut, ctb] (ORCID:
    <https://orcid.org/0009-0006-5549-6113>),
  Santiago Bueno-Fortes [aut, ctb] (ORCID:
    <https://orcid.org/0000-0001-7141-2860>),
  Natalia Alonso-Moreda [aut, ctb] (ORCID:
    <https://orcid.org/0000-0002-2347-5127>),
  Jose Manuel Sanchez-Santos [aut, ctb] (ORCID:
    <https://orcid.org/0000-0002-7434-7598>),
  Manuel Martin-Merino Acera [aut, ctb] (ORCID:
    <https://orcid.org/0000-0002-5914-2332>),
  Javier De Las Rivas [aut, ctb] (ORCID:
    <https://orcid.org/0000-0002-0984-9946>)
Maintainer: Alberto Berral-Gonzalez <aberralgonzalez@gmail.com>
Built: R 4.6.0; ; 2026-04-29 04:33:34 UTC; unix
