EGSEA
Ensemble of Gene Set Enrichment Analyses
Bioconductor version: 3.24 · Package version: 1.41.0
This package implements the Ensemble of Gene Set Enrichment Analyses (EGSEA) method for gene set testing. EGSEA algorithm utilizes the analysis results of twelve prominent GSE algorithms in the literature to calculate collective significance scores for each gene set.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("EGSEA")Details
| Maintainer | Monther Alhamdoosh <m.hamdoosh@gmail.com> |
| Author | Monther Alhamdoosh [aut, cre], Luyi Tian [aut], Milica Ng [aut], Matthew Ritchie [ctb] |
| License | GPL-3 |
| Downloads rank | 751 |
| Source branch | devel |
| biocViews | Classification, DifferentialExpression, GO, GeneExpression, GeneSetEnrichment, GeneSignaling, GeneTarget, Genetics, GraphAndNetwork, ImmunoOncology, KEGG, Metabolomics, Microarray, MultipleComparison, Network, NetworkEnrichment, OneChannel, Pathways, Proteomics, RNASeq, Sequencing, Software, SystemsBiology, TwoChannel |
Documentation
Download
Follow the installation instructions to use this package in your R session.
| Source package | EGSEA_1.41.0.tar.gz |
| Windows binary (x86_64) | EGSEA_1.41.0.zip |
| macOS binary (arm64) | EGSEA_1.41.0.tgz |
| macOS binary (x86_64) | EGSEA_1.41.0.tgz |
Dependencies
Depends: R (>= 4.3.0), Biobase, gage (>= 2.14.4), AnnotationDbi, topGO (>= 2.16.0), pathview (>= 1.4.2)
Imports: PADOG (>= 1.6.0), GSVA (>= 1.12.0), globaltest (>= 5.18.0), limma (>= 3.20.9), edgeR (>= 3.6.8), HTMLUtils (>= 0.1.5), hwriter (>= 1.2.2), gplots (>= 2.14.2), ggplot2 (>= 1.0.0), safe (>= 3.4.0), stringi (>= 0.5.0), parallel, stats, metap, grDevices, graphics, utils, org.Hs.eg.db, org.Mm.eg.db, org.Rn.eg.db, RColorBrewer, methods, EGSEAdata (>= 1.3.1), htmlwidgets, plotly, DT