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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 "nichenetr" in publications use:'
type: software
license: GPL-3.0-only
title: 'nichenetr: Modeling Intercellular Communication by Linking Ligands to Target
  Genes with NicheNet'
version: 2.2.2
identifiers:
- type: doi
  value: 10.32614/CRAN.package.nichenetr
abstract: NicheNet is a computational framework for modeling intercellular communication
  by linking extracellular ligands to intracellular gene regulatory changes. It integrates
  prior knowledge of ligand-receptor interactions, signaling pathways, and transcription
  factor regulation to predict which ligands from sender cells affect gene expression
  in receiver cells. This enables mechanistic hypothesis generation about cell-cell
  communication events observed in transcriptomic data.
authors:
- family-names: Liu
  given-names: Zaoqu
  email: liuzaoqu@163.com
- family-names: Browaeys
  given-names: Robin
- family-names: Saelens
  given-names: Wouter
- family-names: Saeys
  given-names: Yvan
preferred-citation:
  type: article
  title: 'NicheNet: Modeling intercellular communication by linking ligands to target
    genes'
  authors:
  - family-names: Browaeys
    given-names: Robin
  - family-names: Saelens
    given-names: Wouter
  - family-names: Saeys
    given-names: Yvan
  journal: Nature Methods
  year: '2019'
  url: https://www.nature.com/articles/s41592-019-0667-5
repository: https://zaoqu-liu.r-universe.dev
repository-code: https://github.com/Zaoqu-Liu/nichenetr
commit: 54c2cb1cc336fe166ee565f6a52cd4ba9fea801c
url: https://zaoqu-liu.github.io/nichenetr/
date-released: '2026-01-23'
contact:
- family-names: Liu
  given-names: Zaoqu
  email: liuzaoqu@163.com