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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 "AUCell" in publications use:'
type: software
license: GPL-3.0-only
title: 'AUCell: AUCell: Analysis of ''gene set'' activity in single-cell RNA-seq data
  (e.g. identify cells with specific gene signatures)'
version: 1.27.0
doi: 10.1038/nmeth.4463
abstract: AUCell allows to identify cells with active gene sets (e.g. signatures,
  gene modules...) in single-cell RNA-seq data. AUCell uses the "Area Under the Curve"
  (AUC) to calculate whether a critical subset of the input gene set is enriched within
  the expressed genes for each cell. The distribution of AUC scores across all the
  cells allows exploring the relative expression of the signature. Since the scoring
  method is ranking-based, AUCell is independent of the gene expression units and
  the normalization procedure. In addition, since the cells are evaluated individually,
  it can easily be applied to bigger datasets, subsetting the expression matrix if
  needed.
authors:
- family-names: Hulselmans
  given-names: Gert
  email: Gert.Hulselmans@kuleuven.be
- family-names: Aibar
  given-names: Sara
- family-names: Leuven
  given-names: Stein Aerts. Laboratory of Computational Biology. VIB-KU Leuven Center
    for Brain & Disease Research.
- name: Belgium.
preferred-citation:
  type: article
  title: 'SCENIC: Single-Cell Regulatory Network Inference And Clustering'
  authors:
  - family-names: Aibar
    given-names: Sara
  - family-names: Bravo Gonzalez-Blas
    given-names: Carmen
  - family-names: Moerman
    given-names: Thomas
  - family-names: Huynh-Thu
    given-names: Van Anh
  - family-names: Imrichova
    given-names: Hana
  - family-names: Hulselmans
    given-names: Gert
    email: Gert.Hulselmans@kuleuven.be
  - family-names: Rambow
    given-names: Florian
  - family-names: Marine
    given-names: Jean-Christophe
  - family-names: Geurts
    given-names: Pierre
  - family-names: Aerts
    given-names: Jan
  - family-names: Oord
    given-names: Joost
    name-particle: van den
  - family-names: Kalender Atak
    given-names: Zeynep
  - family-names: Wouters
    given-names: Jasper
  - family-names: Aerts
    given-names: Stein
  journal: Nature Methods
  year: '2017'
  doi: 10.1038/nmeth.4463
  volume: '14'
  start: 1083-1086
repository: https://bioc.r-universe.dev
url: http://scenic.aertslab.org
date-released: '2024-03-09'
contact:
- family-names: Hulselmans
  given-names: Gert
  email: Gert.Hulselmans@kuleuven.be
references:
- type: generic
  title: AUCell
  authors:
  - family-names: Aibar
    given-names: Sara
  - family-names: Aerts
    given-names: Stein
  journal: Bioconductor
  year: '2016'