funOmics
Aggregating Omics Data into Higher-Level Functional Representations
Bioconductor version: 3.23 · Package version: 1.6.0
The 'funOmics' package ggregates or summarizes omics data into higher level functional representations such as GO terms gene sets or KEGG metabolic pathways. The aggregated data matrix represents functional activity scores that facilitate the analysis of functional molecular sets while allowing to reduce dimensionality and provide easier and faster biological interpretations. Coordinated functional activity scores can be as informative as single molecules!
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("funOmics") Details
| Maintainer | Elisa Gomez de Lope <elisa.gomezdelope@uni.lu> |
| Author | Elisa Gomez de Lope [aut, cre] (ORCID: <https://orcid.org/0000-0002-7115-7393>), Enrico Glaab [ctb] (ORCID: <https://orcid.org/0000-0003-3977-7469>) |
| License | MIT + file LICENSE |
| URL | https://github.com/elisagdelope/funomics |
| Bug Reports | https://github.com/elisagdelope/funomics/issues |
| Downloads rank | 137 |
| Source branch | RELEASE_3_23 |
| biocViews | GO, KEGG, Metabolomics, Pathways, Proteomics, Software, Transcriptomics |
Documentation
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Dependencies
Depends: R (>= 4.4.0), NMF
Imports: NMF, pathifier, stats, KEGGREST, AnnotationDbi, org.Hs.eg.db, dplyr, stringr
Suggests: knitr, rmarkdown, testthat (>= 3.0.0), MultiAssayExperiment, SummarizedExperiment, airway