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FELLA

Interpretation and enrichment for metabolomics data


Bioconductor version: Release (3.18)

Enrichment of metabolomics data using KEGG entries. Given a set of affected compounds, FELLA suggests affected reactions, enzymes, modules and pathways using label propagation in a knowledge model network. The resulting subnetwork can be visualised and exported.

Author: Sergio Picart-Armada [aut, cre], Francesc Fernandez-Albert [aut], Alexandre Perera-Lluna [aut]

Maintainer: Sergio Picart-Armada <sergi.picart at upc.edu>

Citation (from within R, enter citation("FELLA")):

Installation

To install this package, start R (version "4.3") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("FELLA")

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("FELLA")
Example: a fatty liver study on Mus musculus PDF R Script
Example: oxybenzone exposition in gilt-head bream PDF R Script
FELLA PDF R Script
Quick start HTML R Script
Reference Manual PDF
NEWS Text

Details

biocViews GO, GraphAndNetwork, KEGG, Metabolomics, Network, NetworkEnrichment, Pathways, Software
Version 1.22.0
In Bioconductor since BioC 3.7 (R-3.5) (6 years)
License GPL-3
Depends R (>= 3.5.0)
Imports methods, igraph, Matrix, KEGGREST, plyr, stats, graphics, utils
System Requirements
URL
See More
Suggests shiny, DT, magrittr, visNetwork, knitr, BiocStyle, rmarkdown, testthat, biomaRt, org.Hs.eg.db, org.Mm.eg.db, AnnotationDbi, GOSemSim
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Package Archives

Follow Installation instructions to use this package in your R session.

Source Package FELLA_1.22.0.tar.gz
Windows Binary FELLA_1.22.0.zip
macOS Binary (x86_64) FELLA_1.22.0.tgz
macOS Binary (arm64) FELLA_1.22.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/FELLA
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/FELLA
Bioc Package Browser https://code.bioconductor.org/browse/FELLA/
Package Short Url https://bioconductor.org/packages/FELLA/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.18 Source Archive