aracne.networks
This is the released version of aracne.networks; for the devel version, see aracne.networks.
ARACNe-inferred gene networks from TCGA tumor datasets
Bioconductor version: Release (3.23)
This package contains ARACNe-inferred networks from TCGA tumor datasets. It also contains a function to export them into plain-text format.
Author: Federico M. Giorgi
Maintainer: Federico M. Giorgi <federico.giorgi at gmail.com>, Mariano Alvarez <reef103 at gmail.com>
citation("aracne.networks")):
Huber W, Carey VJ, Gentleman R, Anders S, Carlson M, Carvalho BS, Bravo HC, Davis S, Gatto L, Girke T, Gottardo R, Hahne F, Hansen KD, Irizarry RA, Lawrence M, Love MI, MacDonald J, Obenchain V, Oleś AK, Pagès H, Reyes A, Shannon P, Smyth GK, Tenenbaum D, Waldron L, Morgan M (2015). "Orchestrating high-throughput genomic analysis with Bioconductor." Nature Methods, 12(2), 115–121. doi:10.1038/nmeth.3252.
Gentleman RC, Carey VJ, Bates DM, Bolstad B, Dettling M, Dudoit S, Ellis B, Gautier L, Ge Y, Gentry J, Hornik K, Hothorn T, Huber W, Iacus S, Irizarry R, Leisch F, Li C, Maechler M, Rossini AJ, Sawitzki G, Smith C, Smyth G, Tierney L, Yang JYH, Zhang J (2004). "Bioconductor: open software development for computational biology and bioinformatics." Genome Biology, 5(10), R80. doi:10.1186/gb-2004-5-10-r80.
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("aracne.networks")
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("aracne.networks")| Using aracne.networks | R Script | |
| Reference Manual | ||
| NEWS | Text | |
| LICENSE | Text |
Details
| biocViews | CancerData, ExperimentData, Genome, Homo_sapiens_Data |
| Version | 1.38.0 |
| License | file LICENSE |
| Depends | R (>= 3.3), viper |
| Imports | |
| System Requirements | |
| URL |
See More
| Suggests | |
| 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 | aracne.networks_1.38.0.tar.gz |
| Windows Binary (x86_64) | |
| macOS Binary (big-sur-x86_64) | |
| macOS Binary (sonoma-arm64) | |
| Source Repository | git clone https://git.bioconductor.org/packages/aracne.networks |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/aracne.networks |
| Package Short Url | https://bioconductor.org/packages/aracne.networks/ |
| Package Downloads Report | Download Stats |