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# CITATION file created with {cffr} R package
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cff-version: 1.2.0
message: 'To cite package "scoup" in publications use:'
type: software
license: GPL-2.0-or-later
title: 'scoup: Simulate Codons with Darwinian Selection Modelled as an OU Process'
version: 0.99.17
doi: 10.18129/B9.bioc.scoup
identifiers:
- type: doi
  value: 10.32614/CRAN.package.scoup
abstract: An elaborate molecular evolutionary framework that facilitates straightforward
  simulation of codon genetic sequences subjected to different degrees and/or patterns
  of Darwinian selection. The model was built upon the fitness landscape paradigm
  of Sewall Wright, as popularised by the mutation-selection model of Halpern and
  Bruno. This enabled realistic evolutionary process of living organisms to be reproduced
  seamlessly. For example, an Ornstein-Uhlenbeck fitness update algorithm is incorporated
  herein. Consequently, otherwise complex biological processes, such as the effect
  of the interplay between genetic drift and mutation on the inference of diversifying
  selection, may now be investigated with minimal effort. Frequency-dependent and
  deterministic fitness landscape update techniques are also available.
authors:
- family-names: Sadiq
  given-names: Hassan
  email: hassan.t.sadiq@gmail.com
  orcid: https://orcid.org/0000-0003-0192-7134
preferred-citation:
  type: article
  title: 'scoup: Simulate Codon Sequences with Darwinian Selection Incorporated as
    an Ornstein-Uhlenbeck Process'
  authors:
  - family-names: Sadiq
    given-names: Hassan
    email: hassan.t.sadiq@gmail.com
    orcid: https://orcid.org/0000-0003-0192-7134
  journal: R Package
  year: '2024'
  doi: 10.18129/B9.bioc.scoup
repository: https://bioc.r-universe.dev
repository-code: https://github.com/thsadiq/scoup
commit: 04c7e0c7177965243ce6658d19a3c546cbc9373a
url: https://github.com/thsadiq/scoup
date-released: '2024-10-23'
contact:
- family-names: Sadiq
  given-names: Hassan
  email: hassan.t.sadiq@gmail.com
  orcid: https://orcid.org/0000-0003-0192-7134