FELLA
This package is for version 3.8 of Bioconductor; for the stable, up-to-date release version, see FELLA.
Interpretation and enrichment for metabolomics data
Bioconductor version: 3.8
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("FELLA")):
Installation
To install this package, start R (version "3.5") 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 | R Script | |
| Example: oxybenzone exposition in gilt-head bream | R Script | |
| FELLA | R Script | |
| Quick start | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | GO, GraphAndNetwork, KEGG, Metabolomics, Network, NetworkEnrichment, Pathways, Software |
| Version | 1.2.0 |
| 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_1.2.0.tar.gz |
| Windows Binary | FELLA_1.2.0.zip |
| Mac OS X 10.11 (El Capitan) | FELLA_1.2.0.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 3.8 | Source Archive |