fenr
This is the development version of fenr; for the stable release version, see fenr.
Fast functional enrichment for interactive applications
Bioconductor version: Development (3.21)
Perform fast functional enrichment on feature lists (like genes or proteins) using the hypergeometric distribution. Tailored for speed, this package is ideal for interactive platforms such as Shiny. It supports the retrieval of functional data from sources like GO, KEGG, Reactome, Bioplanet and WikiPathways. By downloading and preparing data first, it allows for rapid successive tests on various feature selections without the need for repetitive, time-consuming preparatory steps typical of other packages.
Author: Marek Gierlinski [aut, cre] (ORCID:
Maintainer: Marek Gierlinski <M.Gierlinski at dundee.ac.uk>
citation("fenr")):
Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("fenr")
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("fenr")| Fast functional enrichment | HTML | R Script |
| Reference Manual | ||
| NEWS | Text | |
| LICENSE | Text |
Details
| biocViews | DifferentialExpression, FunctionalPrediction, GO, GeneSetEnrichment, KEGG, Proteomics, Reactome, Software |
| Version | 1.5.0 |
| In Bioconductor since | BioC 3.18 (R-4.3) (1 year) |
| License | MIT + file LICENSE |
| Depends | R (>= 4.1.0) |
| Imports | tools, methods, assertthat, rlang, dplyr, tidyr, tidyselect, tibble, purrr, readr, stringr, httr2, rvest, progress, BiocFileCache, shiny, ggplot2 |
| System Requirements | |
| URL | https://github.com/bartongroup/fenr |
| Bug Reports | https://github.com/bartongroup/fenr/issues |
See More
| Suggests | BiocStyle, testthat, knitr, rmarkdown, topGO |
| 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 | fenr_1.5.0.tar.gz |
| Windows Binary (x86_64) | fenr_1.5.0.zip |
| macOS Binary (x86_64) | fenr_1.5.0.tgz |
| macOS Binary (arm64) | fenr_1.5.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/fenr |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/fenr |
| Bioc Package Browser | https://code.bioconductor.org/browse/fenr/ |
| Package Short Url | https://bioconductor.org/packages/fenr/ |
| Package Downloads Report | Download Stats |