Registration and Call for Abstracts Open for Bioc2024

FELLA

This is the development version of FELLA; for the stable release version, see FELLA.

Interpretation and enrichment for metabolomics data


Bioconductor version: Development (3.19)

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 "4.4") and enter:


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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

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 1.23.0
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
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report Build Report

Package Archives

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

Source Package FELLA_1.23.0.tar.gz
Windows Binary FELLA_1.23.0.zip
macOS Binary (x86_64) FELLA_1.23.0.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/
Package Downloads Report Download Stats