nethet
This is the released version of nethet; for the devel version, see nethet.
A bioconductor package for high-dimensional exploration of biological network heterogeneity
Bioconductor version: Release (3.23)
Package nethet is an implementation of statistical solid methodology enabling the analysis of network heterogeneity from high-dimensional data. It combines several implementations of recent statistical innovations useful for estimation and comparison of networks in a heterogeneous, high-dimensional setting. In particular, we provide code for formal two-sample testing in Gaussian graphical models (differential network and GGM-GSA; Stadler and Mukherjee, 2013, 2014) and make a novel network-based clustering algorithm available (mixed graphical lasso, Stadler and Mukherjee, 2013).
Author: Nicolas Staedler, Frank Dondelinger
Maintainer: Nicolas Staedler <staedler.n at gmail.com>, Frank Dondelinger <fdondelinger.work at gmail.com>
citation("nethet")):
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("nethet")
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("nethet")| nethet | R Script | |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | Clustering, GraphAndNetwork, Software |
| Version | 1.44.0 |
| In Bioconductor since | BioC 3.1 (R-3.2) (11.5 years) |
| License | GPL-2 |
| Depends | |
| Imports | glasso, mvtnorm, GeneNet, huge, CompQuadForm, ggm, mclust, parallel, GSA, limma, multtest, ICSNP, glmnet, network, ggplot2, grDevices, graphics, stats, utils |
| System Requirements | |
| URL |
See More
| Suggests | knitr, xtable, BiocStyle, testthat |
| 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 | nethet_1.44.0.tar.gz |
| Windows Binary (x86_64) | nethet_1.44.0.zip |
| macOS Binary (big-sur-x86_64) | nethet_1.44.0.tgz |
| macOS Binary (sonoma-arm64) | nethet_1.44.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/nethet |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/nethet |
| Bioc Package Browser | https://code.bioconductor.org/browse/nethet/ |
| Package Short Url | https://bioconductor.org/packages/nethet/ |
| Package Downloads Report | Download Stats |