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# CITATION.cff 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 "dicepro" in publications use:'
type: software
license: MIT
title: 'dicepro: Semi-Supervised Deconvolution of Bulk RNA-Seq Data with Hyperparameter
  Optimization'
version: 1.0.2
abstract: Performs semi-supervised deconvolution of bulk RNA sequencing (RNA-seq)
  data. Known cell-type proportions are estimated using supervised methods -- 'CIBERSORTx'
  (CSx), 'CIBERSORT' (CS), 'FARDEEP' (Fast And Robust DEconvolution of Expression
  Profiles), and 'DCQ' (Digital Cell Quantifier) -- while unknown components are inferred
  using non-negative matrix factorization ('NMF') with limited-memory Broyden-Fletcher-Goldfarb-Shanno
  with bounds ('L-BFGS-B') optimization. Hyperparameters are selected automatically
  using a Pareto-frontier-based approach with knee-point detection, allowing application
  when the reference signature matrix is incomplete. More details about 'DICEpro'
  can be found in Ba et al. (2026) <https://doi.org/10.64898/2026.06.17.732876>.
authors:
- family-names: BA
  given-names: Kalidou
  email: sistm.soft.maintain@gmail.com
- family-names: Hejblum
  given-names: Boris P.
  email: boris.hejblum@u-bordeaux.fr
repository: https://cran.r-universe.dev
repository-code: https://github.com/kalidouBA/dicepro
commit: 98e5ba8f5f2b183b41c6e8ac541ab2773c0f5733
url: https://github.com/kalidouBA/dicepro
date-released: '2026-06-30'
contact:
- family-names: BA
  given-names: Kalidou
  email: sistm.soft.maintain@gmail.com