FELLA

DOI: 10.18129/B9.bioc.FELLA    

This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see FELLA.

Interpretation and enrichment for metabolomics data

Bioconductor version: 3.9

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 "3.6") and enter:

if (!requireNamespace("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")

 

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

Details

biocViews GO, GraphAndNetwork, KEGG, Metabolomics, Network, NetworkEnrichment, Pathways, Software
Version 1.4.1
In Bioconductor since BioC 3.7 (R-3.5) (1.5 years)
License GPL-3
Depends R (>= 3.5.0)
Imports methods, igraph, Matrix, KEGGREST, plyr, stats, graphics, utils
LinkingTo
Suggests shiny, DT, magrittr, visNetwork, knitr, BiocStyle, rmarkdown, testthat, biomaRt, org.Hs.eg.db, org.Mm.eg.db, AnnotationDbi, GOSemSim
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

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

Source Package FELLA_1.4.1.tar.gz
Windows Binary FELLA_1.4.1.zip
Mac OS X 10.11 (El Capitan) FELLA_1.4.1.tgz
Source Repository git clone https://git.bioconductor.org/packages/FELLA
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/FELLA
Package Short Url https://bioconductor.org/packages/FELLA/
Package Downloads Report Download Stats

Documentation »

Bioconductor

R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: