biospear: an R package for biomarker selection in penalized Cox regression

Nils Ternès; Federico Rotolo; Stefan Michiels

doi:10.1093/bioinformatics/btx560

biospear: an R package for biomarker selection in penalized Cox regression

Bioinformatics. 2018 Jan 1;34(1):112-113. doi: 10.1093/bioinformatics/btx560.

Authors

Nils Ternès^{1

2}, Federico Rotolo^{1

2}, Stefan Michiels^{1

2}

Affiliations

¹ Gustave Roussy, Université Paris-Saclay, Service de biostatistique et d'épidémiologie, Villejuif, F-94805, France.
² Université Paris-Saclay, Univ. Paris-Sud, UVSQ, CESP, INSERM, Villejuif, F-94805, France.

PMID: 28927242
DOI: 10.1093/bioinformatics/btx560

Abstract

Summary: The R package biospear allows selecting the biomarkers with the strongest impact on survival and on the treatment effect in high-dimensional Cox models, and estimating expected survival probabilities. Most of the implemented approaches are based on penalized regression techniques.

Availability and implementation: The package is available on the CRAN. (https://CRAN.R-project.org/package=biospear).

Contact: stefan.michiels@gustaveroussy.fr.

Supplementary information: Supplementary data are available at Bioinformatics online.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Biomarkers
Computational Biology / methods
Humans
Proportional Hazards Models*
Software*

Substances

Biomarkers