netOmics
This package is for version 3.19 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see netOmics.
Multi-Omics (time-course) network-based integration and interpretation
Bioconductor version: 3.19
netOmics is a multi-omics networks builder and explorer. It uses a combination of network inference algorithms and and knowledge-based graphs to build multi-layered networks. The package can be combined with timeOmics to incorporate time-course expression data and build sub-networks from multi-omics kinetic clusters. Finally, from the generated multi-omics networks, propagation analyses allow the identification of missing biological functions (1), multi-omics mechanisms (2) and molecules between kinetic clusters (3). This helps to resolve complex regulatory mechanisms.
Author: Antoine Bodein [aut, cre]
Maintainer: Antoine Bodein <antoine.bodein.1 at ulaval.ca>
citation("netOmics")
):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("netOmics")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
Reference Manual |
Details
biocViews | GraphAndNetwork, Network, NetworkInference, Software, SystemsBiology, TimeCourse, WorkflowStep |
Version | 1.10.0 |
In Bioconductor since | BioC 3.14 (R-4.1) (3 years) |
License | GPL-3 |
Depends | R (>= 4.1) |
Imports | dplyr, ggplot2, igraph, magrittr, minet, purrr, tibble, tidyr, AnnotationDbi, GO.db, gprofiler2, methods, Matrix, stats |
System Requirements | |
URL | https://github.com/abodein/netOmics |
Bug Reports | https://github.com/abodein/netOmics/issues |
See More
Suggests | mixOmics, timeOmics, tidyverse, BiocStyle, testthat, covr, rmarkdown, knitr |
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 | |
Windows Binary (x86_64) | |
macOS Binary (x86_64) | |
macOS Binary (arm64) | |
Source Repository | git clone https://git.bioconductor.org/packages/netOmics |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/netOmics |
Package Short Url | https://bioconductor.org/packages/netOmics/ |
Package Downloads Report | Download Stats |