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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 "doubletrouble" in publications use:'
type: software
license: GPL-3.0-only
title: 'doubletrouble: Identification and classification of duplicated genes'
version: 1.5.3
doi: 10.32614/CRAN.package.doubletrouble
abstract: doubletrouble aims to identify duplicated genes from whole-genome protein
  sequences and classify them based on their modes of duplication. The duplication
  modes are i. segmental duplication (SD); ii. tandem duplication (TD); iii. proximal
  duplication (PD); iv. transposed duplication (TRD) and; v. dispersed duplication
  (DD). Transposon-derived duplicates (TRD) can be further subdivided into rTRD (retrotransposon-derived
  duplication) and dTRD (DNA transposon-derived duplication). If users want a simpler
  classification scheme, duplicates can also be classified into SD- and SSD-derived
  (small-scale duplication) gene pairs. Besides classifying gene pairs, users can
  also classify genes, so that each gene is assigned a unique mode of duplication.
  Users can also calculate substitution rates per substitution site (i.e., Ka and
  Ks) from duplicate pairs, find peaks in Ks distributions with Gaussian Mixture Models
  (GMMs), and classify gene pairs into age groups based on Ks peaks.
authors:
- family-names: Almeida-Silva
  given-names: Fabrício
  email: fabricio_almeidasilva@hotmail.com
  orcid: https://orcid.org/0000-0002-5314-2964
- family-names: Peer
  given-names: Yves
  name-particle: Van de
  email: yves.vandepeer@psb.vib-ugent.be
  orcid: https://orcid.org/0000-0003-4327-3730
repository: https://bioc.r-universe.dev
repository-code: https://github.com/almeidasilvaf/doubletrouble
commit: 29a38accf9c23869cc873088b70cc997876a5448
url: https://support.bioconductor.org/t/doubletrouble
date-released: '2024-03-19'
contact:
- family-names: Almeida-Silva
  given-names: Fabrício
  email: fabricio_almeidasilva@hotmail.com
  orcid: https://orcid.org/0000-0002-5314-2964