DOI: 10.18129/B9.bioc.ternarynet  

This package is for version 3.17 of Bioconductor; for the stable, up-to-date release version, see ternarynet.

Ternary Network Estimation

Bioconductor version: 3.17

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")):


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PDF R Script ternarynet: A Computational Bayesian Approach to Ternary Network Estimation
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biocViews Bayesian, CellBiology, GraphAndNetwork, Network, Software
Version 1.44.0
In Bioconductor since BioC 2.10 (R-2.15) (11.5 years)
License GPL (>= 2)
Depends R (>= 4.0)
Imports utils, igraph, methods, graphics, stats, BiocParallel
Suggests testthat
Enhances Rmpi, snow
Depends On Me
Imports Me
Suggests Me
Links To Me
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Source Package ternarynet_1.44.0.tar.gz
Windows Binary ternarynet_1.44.0.zip
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Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/ternarynet
Bioc Package Browser https://code.bioconductor.org/browse/ternarynet/
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