Package: asuri 0.99.20

Alberto Berral-Gonzalez

asuri: Analysis of SUrvival and RIsk prediction in patients based on gene signatures

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:Alberto Berral-Gonzalez [aut, cre, ctb], María Sanchez-Martin [aut, ctb], Santiago Bueno-Fortes [aut, ctb], Natalia Alonso-Moreda [aut, ctb], Jose Manuel Sanchez-Santos [aut, ctb], Manuel Martin-Merino Acera [aut, ctb], Javier De Las Rivas [aut, ctb]

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NEWS

# Install 'asuri' in R:
install.packages('asuri', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/jdelasrivas-lab/asuri/issues

Datasets:

On BioConductor:asuri-0.99.20(bioc 3.23)

softwarestatisticalmethodworkflowstepgeneexpressionmicroarraydifferentialexpressiongenepredictionregressionsurvivalexonarraymultiplecomparison

4.74 score 1 scripts 136 downloads 13 exports 91 dependencies

Last updated from:47bc30e857. Checks:8 NOTE, 2 OK. Indexed: yes.

TargetResultTimeFilesSyslog
bioc-checksNOTE213
linux-devel-x86_64NOTE481
source / vignettesOK433
linux-release-x86_64NOTE509
macos-release-arm64NOTE257
macos-oldrel-arm64NOTE268
windows-develNOTE488
windows-releaseNOTE514
windows-oldrelNOTE477
wasm-releaseOK165

Exports:genePhenogeneSurvpatientRiskplotBetasplotBoxplotplotKMplotLambdaplotLogRankplotProbClassplotSigmoidpredict_PatientRiskpredict_SurvCurveprefilterSAM

Dependencies:abindaskpassassertthatBiobaseBiocGenericsbitopsbootstrapcaToolsclassclicodetoolscpp11crayoncurldata.tableDelayedArraydiagramdigestfarverforeachfuturefuture.applygenericsGenomicRangesggplot2glmnetglobalsgluegplotsgtablegtoolshttripredIRangesisobanditeratorsjsonliteKernSmoothlabelinglatticelavalifecyclelistenvlubridatemagrittrMASSMatrixMatrixGenericsmatrixStatsmimemulttestnnetnumDerivopensslparallellyprodlimprogressrR6rbibutilsRColorBrewerRcppRcppEigenRdpackrlangrmetaROCRrpartS4ArraysS4VectorsS7scalesscrimeSeqinfoshapesiggenesSparseArrayspsUtilSQUAREMstringistringrSummarizedExperimentSuppDistssurvcompsurvivalsurvivalROCsystimechangevctrsviridisLitewithrXVector

ASURI: An R Package for Survival Analysis and Risk Prediction using Gene Expression

Alberto Berral-Gonzalez, Santiago Bueno-Fortes, Natalia Alonso-Moreda, Jose Manuel Sanchez-Santos, Manuel Martin-Merino, Javier De Las Rivas

Rendered fromasuri.Rmdusingknitr::rmarkdownon Apr 18 2026.

Last update: 2026-03-18
Started: 2025-04-24