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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 "DeCovarT" in publications use:'
type: software
license: MIT
title: 'DeCovarT: Covariance-Aware Deconvolution of Bulk Transcriptomic Samples'
version: 2.3.1
doi: 10.48550/arXiv.2309.09557
identifiers:
- type: doi
  value: 10.32614/CRAN.package.DeCovarT
abstract: Estimates cell-type proportions in bulk transcriptomic samples with a probabilistic
  convolution model that integrates the gene-gene covariance structure of purified
  reference profiles. Cellular ratios are recovered by maximum likelihood under a
  multivariate Gaussian convolution, using analytic gradients and Hessians, an isometric
  log-ratio reparametrisation (Helmert basis) that enforces the simplex constraint,
  and Marquardt-Levenberg or Newton-type optimisers. The methodology is described
  in Chassagnol, Nuel and Becht (2023) <https://doi.org/10.48550/arXiv.2309.09557>.
authors:
- family-names: Chassagnol
  given-names: Bastien
  email: bastien_chassagnol@laposte.net
  orcid: https://orcid.org/0000-0002-8955-2391
preferred-citation:
  type: generic
  title: DeCovarT, a Multidimensional Probabilistic Model for the Deconvolution of
    Heterogeneous Transcriptomic Samples
  authors:
  - family-names: Chassagnol
    given-names: Bastien
    email: bastien_chassagnol@laposte.net
    orcid: https://orcid.org/0000-0002-8955-2391
  - family-names: Nuel
    given-names: Grégory
  - family-names: Becht
    given-names: Etienne
  year: '2023'
  doi: 10.48550/arXiv.2309.09557
  url: https://arxiv.org/abs/2309.09557
  notes: arXiv:2309.09557 [q-bio.QM]
repository: https://ropensci-staging.r-universe.dev
repository-code: https://github.com/bastienchassagnol/DeCovarT
commit: 5245f2cf91276ed01a14d60aa4944ef0fcf58e54
url: https://bastienchassagnol.github.io/DeCovarT/
date-released: '2026-10-01'
contact:
- family-names: Chassagnol
  given-names: Bastien
  email: bastien_chassagnol@laposte.net
  orcid: https://orcid.org/0000-0002-8955-2391