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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 "CeTF" in publications use:'
type: software
license: GPL-3.0-only
title: 'CeTF: Coexpression for Transcription Factors using Regulatory Impact Factors
  and Partial Correlation and Information Theory analysis'
version: 1.25.0
doi: 10.1186/s12864-021-07918-2
identifiers:
- type: doi
  value: 10.32614/CRAN.package.CeTF
abstract: This package provides the necessary functions for performing the Partial
  Correlation coefficient with Information Theory (PCIT) (Reverter and Chan 2008)
  and Regulatory Impact Factors (RIF) (Reverter et al. 2010) algorithm. The PCIT algorithm
  identifies meaningful correlations to define edges in a weighted network and can
  be applied to any correlation-based network including but not limited to gene co-expression
  networks, while the RIF algorithm identify critical Transcription Factors (TF) from
  gene expression data. These two algorithms when combined provide a very relevant
  layer of information for gene expression studies (Microarray, RNA-seq and single-cell
  RNA-seq data).
authors:
- family-names: Biagi Junior
  given-names: Carlos Alberto
  name-particle: Oliveira de
  email: cbiagijr@gmail.com
- family-names: Perecin Nociti
  given-names: Ricardo
  email: rnociti@gmail.com
- family-names: Osvaldo Funicheli
  given-names: Breno
  email: osvaldobreno99@gmail.com
- family-names: Silva Junior
  given-names: Wilson
  name-particle: Araújo da
  email: wilsonjr@usp.br
preferred-citation:
  type: article
  title: 'CeTF: an R/Bioconductor package for transcription factor co-expression networks
    using regulatory impact factors (RIF) and partial correlation and information
    (PCIT) analysis'
  authors:
  - family-names: Junior
    given-names: Carlos Alberto Oliveira de Biagi
  - family-names: Nociti
    given-names: Ricardo Perecin
  - family-names: Funicheli
    given-names: Breno Osvaldo
  - family-names: Ruy
    given-names: Patricia de Cassia
  - family-names: Ximenez
    given-names: Joao Paulo Bianchi
  - family-names: Figueiredo
    given-names: David Livingstone Alves
  - family-names: Silva Jr
    given-names: Wilson A
  journal: BMC genomics
  year: '2021'
  doi: 10.1186/s12864-021-07918-2
  url: https://bmcgenomics.biomedcentral.com/articles/10.1186/s12864-021-07918-2
repository: https://bioc.r-universe.dev
commit: 13787a4c8c56a671ef45a5ba4321de67b6576f60
date-released: '2026-04-28'
contact:
- family-names: Biagi Junior
  given-names: Carlos Alberto
  name-particle: Oliveira de
  email: cbiagijr@gmail.com