RLassoCox
This is the development version of RLassoCox; for the stable release version, see RLassoCox.
A reweighted Lasso-Cox by integrating gene interaction information
Bioconductor version: Development (3.21)
RLassoCox is a package that implements the RLasso-Cox model proposed by Wei Liu. The RLasso-Cox model integrates gene interaction information into the Lasso-Cox model for accurate survival prediction and survival biomarker discovery. It is based on the hypothesis that topologically important genes in the gene interaction network tend to have stable expression changes. The RLasso-Cox model uses random walk to evaluate the topological weight of genes, and then highlights topologically important genes to improve the generalization ability of the Lasso-Cox model. The RLasso-Cox model has the advantage of identifying small gene sets with high prognostic performance on independent datasets, which may play an important role in identifying robust survival biomarkers for various cancer types.
Author: Wei Liu [cre, aut] (ORCID:
Maintainer: Wei Liu <freelw at qq.com>
citation("RLassoCox")):
Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("RLassoCox")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("RLassoCox")| RLassoCox | R Script | |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | GeneExpression, GenePrediction, Network, Regression, Software, Survival |
| Version | 1.15.0 |
| In Bioconductor since | BioC 3.13 (R-4.1) (3.5 years) |
| License | Artistic-2.0 |
| Depends | R (>= 4.1), glmnet |
| Imports | Matrix, igraph, survival, stats |
| System Requirements | |
| URL | |
| Bug Reports | https://github.com/weiliu123/RLassoCox/issues |
See More
| Suggests | knitr |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | RLassoCox_1.15.0.tar.gz |
| Windows Binary (x86_64) | RLassoCox_1.15.0.zip (64-bit only) |
| macOS Binary (x86_64) | RLassoCox_1.15.0.tgz |
| macOS Binary (arm64) | RLassoCox_1.15.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/RLassoCox |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/RLassoCox |
| Bioc Package Browser | https://code.bioconductor.org/browse/RLassoCox/ |
| Package Short Url | https://bioconductor.org/packages/RLassoCox/ |
| Package Downloads Report | Download Stats |