multiGSEA
Combining GSEA-based pathway enrichment with multi omics data integration
Bioconductor version: 3.24 · Package version: 1.23.0
Extracted features from pathways derived from 8 different databases (KEGG, Reactome, Biocarta, etc.) can be used on transcriptomic, proteomic, and/or metabolomic level to calculate a combined GSEA-based enrichment score.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("multiGSEA")Details
| Maintainer | Sebastian Canzler <sebastian.canzler@ufz.de> |
| Author | Sebastian Canzler [aut, cre] (ORCID: <https://orcid.org/0000-0001-7935-9582>), Jörg Hackermüller [aut] (ORCID: <https://orcid.org/0000-0003-4920-7072>) |
| License | GPL-3 |
| URL | https://github.com/yigbt/multiGSEA |
| Bug Reports | https://github.com/yigbt/multiGSEA/issues |
| Downloads rank | 511 |
| Source branch | devel |
| biocViews | BioCarta, GeneSetEnrichment, Pathways, Reactome, Software |
Documentation
Download
Follow the installation instructions to use this package in your R session.
| Source package | multiGSEA_1.23.0.tar.gz |
| Windows binary (x86_64) | multiGSEA_1.23.0.zip |
| macOS binary (arm64) | multiGSEA_1.23.0.tgz |
| macOS binary (x86_64) | multiGSEA_1.23.0.tgz |
Dependencies
Depends: R (>= 4.0.0)
Imports: magrittr, graphite, AnnotationDbi, metaboliteIDmapping, dplyr, fgsea, metap, rappdirs, rlang, methods
Suggests: org.Hs.eg.db, org.Mm.eg.db, org.Rn.eg.db, org.Ss.eg.db, org.Bt.eg.db, org.Ce.eg.db, org.Dm.eg.db, org.Dr.eg.db, org.Gg.eg.db, org.Xl.eg.db, org.Cf.eg.db, knitr, rmarkdown, BiocStyle, testthat (>= 2.1.0)