FGNet
This is the development version of FGNet; for the stable release version, see FGNet.
Functional Gene Networks derived from biological enrichment analyses
Bioconductor version: Development (3.20)
Build and visualize functional gene and term networks from clustering of enrichment analyses in multiple annotation spaces. The package includes a graphical user interface (GUI) and functions to perform the functional enrichment analysis through DAVID, GeneTerm Linker, gage (GSEA) and topGO.
Author: Sara Aibar, Celia Fontanillo, Conrad Droste and Javier De Las Rivas.
Maintainer: Sara Aibar <saibar at usal.es>
citation("FGNet")
):
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("FGNet")
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("FGNet")
FGNet | HTML | R Script |
Reference Manual | ||
NEWS | Text |
Details
biocViews | Annotation, Clustering, FunctionalGenomics, GO, GeneSetEnrichment, Network, NetworkEnrichment, Pathways, Software, Visualization |
Version | 3.39.0 |
In Bioconductor since | BioC 2.13 (R-3.0) (11 years) |
License | GPL (>= 2) |
Depends | R (>= 4.2.0) |
Imports | igraph (>= 0.6), hwriter, R.utils, XML, plotrix, reshape2, RColorBrewer, png, methods, stats, utils, graphics, grDevices |
System Requirements | |
URL | http://www.cicancer.org |
See More
Suggests | RCurl, gage, topGO, GO.db, reactome.db, RUnit, BiocGenerics, org.Sc.sgd.db, knitr, rmarkdown, AnnotationDbi, BiocManager |
Linking To | |
Enhances | |
Depends On Me | |
Imports Me | IntramiRExploreR |
Suggests Me | |
Links To Me | |
Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
Source Package | FGNet_3.39.0.tar.gz |
Windows Binary | FGNet_3.39.0.zip |
macOS Binary (x86_64) | FGNet_3.39.0.tgz |
macOS Binary (arm64) | FGNet_3.39.0.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/FGNet |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/FGNet |
Bioc Package Browser | https://code.bioconductor.org/browse/FGNet/ |
Package Short Url | https://bioconductor.org/packages/FGNet/ |
Package Downloads Report | Download Stats |