FELLA

This is the released version of FELLA; for the devel version, see FELLA.

Interpretation and enrichment for metabolomics data

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DOI: 10.18129/B9.bioc.FELLA

Bioconductor version: Release (3.22)

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 "4.5") 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

Need some help? Ask on the Bioconductor Support site!

Details

biocViews GO, GraphAndNetwork, KEGG, Metabolomics, Network, NetworkEnrichment, Pathways, Software

Version 1.30.0

In Bioconductor since BioC 3.7 (R-3.5) (7.5 years)

License GPL-3

Depends R (>= 3.5.0)

Imports methods, igraph, Matrix, KEGGREST, plyr, stats, graphics, utils

System Requirements

URL

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_1.30.0.tar.gz

Windows Binary (x86_64) FELLA_1.30.0.zip

macOS Binary (x86_64) FELLA_1.30.0.tgz

macOS Binary (arm64)

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/

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