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Ternary Network Estimation

Bioconductor version: Release (3.18)

Gene-regulatory network (GRN) modeling seeks to infer dependencies between genes and thereby provide insight into the regulatory relationships that exist within a cell. This package provides a computational Bayesian approach to GRN estimation from perturbation experiments using a ternary network model, in which gene expression is discretized into one of 3 states: up, unchanged, or down). The ternarynet package includes a parallel implementation of the replica exchange Monte Carlo algorithm for fitting network models, using MPI.

Author: Matthew N. McCall <mccallm at gmail.com>, Anthony Almudevar <Anthony_Alumudevar at urmc.rochester.edu>, David Burton <David_Burton at urmc.rochester.edu>, Harry Stern <harry.stern at rochester.edu>

Maintainer: McCall N. Matthew <mccallm at gmail.com>

Citation (from within R, enter citation("ternarynet")):


To install this package, start R (version "4.3") and enter:

if (!require("BiocManager", quietly = TRUE))


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:

ternarynet: A Computational Bayesian Approach to Ternary Network Estimation PDF R Script
Reference Manual PDF


biocViews Bayesian, CellBiology, GraphAndNetwork, Network, Software
Version 1.46.0
In Bioconductor since BioC 2.10 (R-2.15) (12 years)
License GPL (>= 2)
Depends R (>= 4.0)
Imports utils, igraph, methods, graphics, stats, BiocParallel
System Requirements
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Suggests testthat
Linking To
Enhances Rmpi, snow
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Package Archives

Follow Installation instructions to use this package in your R session.

Source Package ternarynet_1.46.0.tar.gz
Windows Binary ternarynet_1.46.0.zip
macOS Binary (x86_64) ternarynet_1.46.0.tgz
macOS Binary (arm64) ternarynet_1.46.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/ternarynet
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/ternarynet
Bioc Package Browser https://code.bioconductor.org/browse/ternarynet/
Package Short Url https://bioconductor.org/packages/ternarynet/
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