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# CITATION file created with {cffr} R package
# See also: https://docs.ropensci.org/cffr/
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cff-version: 1.2.0
message: 'To cite package "ternarynet" in publications use:'
type: software
license: GPL-2.0-or-later
title: 'ternarynet: Ternary Network Estimation'
version: 1.49.0
abstract: '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.'
authors:
- family-names: Matthew
  given-names: McCall
  email: mccallm@gmail.com
- family-names: Anthony
  given-names: Almudevar
  email: Anthony_Almudevar@urmc.rochester.edu
- family-names: David
  given-names: Burton
  email: David_Burton@urmc.rochester.edu
- family-names: Harry
  given-names: Stern
  email: harry.stern@rochester.edu
preferred-citation:
  type: article
  title: Fitting Boolean Networks from Steady State Perturbation Data
  authors:
  - family-names: Almudevar
    given-names: Anthony
  - family-names: McCall
    given-names: Matthew N
  - family-names: McMurray
    given-names: Helene
  - family-names: Land
    given-names: Hartmut
  journal: Statistical Applications in Genetics and Molecular Biology
  volume: '10'
  issue: '1'
  year: '2011'
  publisher:
    name: Berkeley Electronic Press
  start: '47'
repository: https://bioc.r-universe.dev
date-released: '2024-02-19'
contact:
- family-names: Matthew
  given-names: McCall
  email: mccallm@gmail.com
references:
- type: article
  title: Gene network modeling via TopNet reveals robust epistatic interactions between
    functionally diverse tumor critical mediator genes
  authors:
  - name: McMurray
  - family-names: R
    given-names: Helene
  - name: Ambeskovic
  - name: Aslihan
  - name: Newman
  - family-names: A
    given-names: Laurel
  - name: Aldersley
  - name: Jordan
  - name: Balakrishnan
  - name: Vijaya
  - name: Smith
  - name: Bradley
  - name: Stern
  - family-names: A
    given-names: Harry
  - name: Land
  - name: Hartmut
  - name: McCall
  - family-names: 'N'
    given-names: Matthew
  journal: bioRxiv
  year: '2020'
  publisher:
    name: Cold Spring Harbor Laboratory