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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 "SPICEY" in publications use:'
type: software
license: Artistic-2.0
title: 'SPICEY: Calculates cell type specificity from single cell data'
version: 1.3.0
doi: 10.32614/CRAN.package.SPICEY
abstract: 'SPICEY (SPecificity Index for Coding and Epigenetic activitY) is an R package
  designed to quantify cell-type specificity in single-cell transcriptomic and epigenomic
  data, particularly scRNA-seq and scATAC-seq. It introduces two complementary indices:
  the Gene Expression Tissue Specificity Index (GETSI) and the Regulatory Element
  Tissue Specificity Index (RETSI), both based on entropy to provide continuous, interpretable
  measures of specificity. By integrating gene expression and chromatin accessibility,
  SPICEY enables standardized analysis of cell-type-specific regulatory programs across
  diverse tissues and conditions.'
authors:
- family-names: Fuentes-Páez
  given-names: Georgina
  email: georgina.fuentes@upf.edu
  orcid: https://orcid.org/0009-0003-9417-7148
- family-names: Molina
  given-names: Nacho
  email: molinan@igbmc.fr
- family-names: Ramos-Rodriguez
  given-names: Mireia
  email: mireia.ramos@upf.edu
- family-names: Pasquali
  given-names: Lorenzo
  email: lorenzo.pasquali@upf.edu
repository: https://bioc.r-universe.dev
repository-code: https://github.com/georginafp/SPICEY
commit: 8c65e8a22df91698ed97b65989d4a3ea85b59a80
url: https://georginafp.github.io/SPICEY
date-released: '2026-04-28'
contact:
- family-names: Fuentes-Páez
  given-names: Georgina
  email: georgina.fuentes@upf.edu
  orcid: https://orcid.org/0009-0003-9417-7148