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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 "scp" in publications use:'
type: software
license: Artistic-2.0
title: 'scp: Mass Spectrometry-Based Single-Cell Proteomics Data Analysis'
version: 1.15.2
identifiers:
- type: doi
  value: 10.32614/CRAN.package.scp
abstract: Utility functions for manipulating, processing, and analyzing mass spectrometry-based
  single-cell proteomics data. The package is an extension to the 'QFeatures' package
  and relies on 'SingleCellExpirement' to enable single-cell proteomics analyses.
  The package offers the user the functionality to process quantitative table (as
  generated by MaxQuant, Proteome Discoverer, and more) into data tables ready for
  downstream analysis and data visualization.
authors:
- family-names: Vanderaa
  given-names: Christophe
  email: christophe.vanderaa@ugent.be
  orcid: https://orcid.org/0000-0001-7443-5427
- family-names: Gatto
  given-names: Laurent
  email: laurent.gatto@uclouvain.be
  orcid: https://orcid.org/0000-0002-1520-2268
preferred-citation:
  type: article
  title: Revisiting the thorny issue of missing values in single-cell proteomics
  authors:
  - family-names: Vanderaa
    given-names: Christophe
    email: christophe.vanderaa@ugent.be
    orcid: https://orcid.org/0000-0001-7443-5427
  - family-names: Gatto
    given-names: Laurent
    email: laurent.gatto@uclouvain.be
    orcid: https://orcid.org/0000-0002-1520-2268
  journal: J. Proteome Res.
  volume: '22'
  issue: '9'
  month: '9'
  year: '2023'
  start: '2775'
  end: '2784'
repository: https://uclouvain-cbio.r-universe.dev
repository-code: https://github.com/UCLouvain-CBIO/scp
commit: ed48ba714a4a354658c67345da1dcffd408cbe8a
url: https://UCLouvain-CBIO.github.io/scp
contact:
- family-names: Vanderaa
  given-names: Christophe
  email: christophe.vanderaa@ugent.be
  orcid: https://orcid.org/0000-0001-7443-5427
references:
- type: article
  title: The current state of single-cell proteomics data analysis
  authors:
  - family-names: Vanderaa
    given-names: Christophe
  - family-names: Gatto
    given-names: Laurent
  journal: Current Protocols
  year: '2023'
  start: e658
- type: article
  title: Replication of Single-Cell Proteomics Data Reveals Important Computational
    Challenges
  authors:
  - family-names: Vanderaa
    given-names: Christophe
  - family-names: Gatto
    given-names: Laurent
  journal: Expert Review of Proteomics
  year: '2021'
  start: 1-9
- type: article
  title: 'scplainer: using linear models to understand mass spectrometry-based single-cell
    proteomics data'
  authors:
  - family-names: Vanderaa
    given-names: Christophe
  - family-names: Gatto
    given-names: Laurent
  journal: bioRxiv
  year: '2024'