multiGSEA
This is thereleased version of multiGSEA; for the devel version, seemultiGSEA.
Combining GSEA-based pathway enrichment with multi omics data integration
Bioconductor version: Release (3.22)
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.
Author: Sebastian Canzler [aut, cre]
ORCID: 0000-0001-7935-9582, Jörg Hackermüller [aut] ORCID: 0000-0003-4920-7072
Maintainer: Sebastian Canzler <sebastian.canzler at ufz.de>
citation("multiGSEA")):Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager")BiocManager::install("multiGSEA")For older versions of R, please refer to the appropriateBioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("multiGSEA")| multiGSEA.html | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | BioCarta,GeneSetEnrichment,Pathways,Reactome,Software |
| Version | 1.20.0 |
| In Bioconductor since | BioC 3.12 (R-4.0) (5 years) |
| License | GPL-3 |
| Depends | R (>= 4.0.0) |
| Imports | magrittr,graphite,AnnotationDbi,metaboliteIDmapping,dplyr,fgsea,metap,rappdirs,rlang, methods |
| System Requirements | |
| URL | https://github.com/yigbt/multiGSEA |
| Bug Reports | https://github.com/yigbt/multiGSEA/issues |
See More
| 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) |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
FollowInstallation instructions to use this package in your R session.
| Source Package | multiGSEA_1.20.0.tar.gz |
| Windows Binary (x86_64) | multiGSEA_1.20.0.zip |
| macOS Binary (x86_64) | multiGSEA_1.20.0.tgz |
| macOS Binary (arm64) | multiGSEA_1.20.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/multiGSEA |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/multiGSEA |
| Bioc Package Browser | https://code.bioconductor.org/browse/multiGSEA/ |
| Package Short Url | https://bioconductor.org/packages/multiGSEA/ |
| Package Downloads Report | Download Stats |