GSgalgoR
This package is for version 3.12 of Bioconductor; for the stable, up-to-date release version, see GSgalgoR.
An Evolutionary Framework for the Identification and Study of Prognostic Gene Expression Signatures in Cancer
Bioconductor version: 3.12
A multi-objective optimization algorithm for disease sub-type discovery based on a non-dominated sorting genetic algorithm. The 'Galgo' framework combines the advantages of clustering algorithms for grouping heterogeneous 'omics' data and the searching properties of genetic algorithms for feature selection. The algorithm search for the optimal number of clusters determination considering the features that maximize the survival difference between sub-types while keeping cluster consistency high.
Author: Martin Guerrero [aut], Carlos Catania [cre]
Maintainer: Carlos Catania <harpomaxx at gmail.com>
citation("GSgalgoR")):
Installation
To install this package, start R (version "4.0") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("GSgalgoR")
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("GSgalgoR")| GSgalgoR.html | HTML | R Script |
| GSgalgoR_callbacks.html | HTML | R Script |
| Reference Manual | ||
| NEWS | Text | |
| LICENSE | Text |
Details
| biocViews | Classification, Clustering, GeneExpression, Software, Survival, Transcription |
| Version | 1.0.0 |
| In Bioconductor since | BioC 3.12 (R-4.0) (3.5 years) |
| License | MIT + file LICENSE |
| Depends | |
| Imports | cluster, doParallel, foreach, matchingR, nsga2R, survival, proxy, stats, methods |
| System Requirements | |
| URL | https://github.com/harpomaxx/GSgalgoR |
| Bug Reports | https://github.com/harpomaxx/GSgalgoR/issues |
See More
| Suggests | knitr, rmarkdown, ggplot2, BiocStyle, genefu, survcomp, Biobase, survminer, breastCancerTRANSBIG, breastCancerUPP, iC10TrainingData, pamr, testthat |
| 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 | GSgalgoR_1.0.0.tar.gz |
| Windows Binary | GSgalgoR_1.0.0.zip |
| macOS 10.13 (High Sierra) | GSgalgoR_1.0.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/GSgalgoR |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/GSgalgoR |
| Bioc Package Browser | https://code.bioconductor.org/browse/GSgalgoR/ |
| Package Short Url | https://bioconductor.org/packages/GSgalgoR/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.12 | Source Archive |