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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 "CATALYST" in publications use:'
type: software
title: 'CATALYST: Cytometry dATa anALYSis Tools'
version: 1.36.0
doi: 10.1016/j.cels.2018.02.010
identifiers:
- type: doi
  value: 10.32614/CRAN.package.CATALYST
abstract: CATALYST provides tools for preprocessing of and differential discovery
  in cytometry data such as FACS, CyTOF, and IMC. Preprocessing includes i) normalization
  using bead standards, ii) single-cell deconvolution, and iii) bead-based compensation.
  For differential discovery, the package provides a number of convenient functions
  for data processing (e.g., clustering, dimension reduction), as well as a suite
  of visualizations for exploratory data analysis and exploration of results from
  differential abundance (DA) and state (DS) analysis in order to identify differences
  in composition and expression profiles at the subpopulation-level, respectively.
authors:
- family-names: Crowell
  given-names: Helena L.
  email: helena@crowell.eu
  orcid: https://orcid.org/0000-0002-4801-1767
- family-names: Zanotelli
  given-names: Vito R.T.
  orcid: https://orcid.org/0000-0001-7268-311X
- family-names: Chevrier
  given-names: Stéphane
  orcid: https://orcid.org/0000-0002-9216-7910
- family-names: Robinson
  given-names: Mark D.
  orcid: https://orcid.org/0000-0002-3048-5518
preferred-citation:
  type: article
  title: Compensation of Signal Spillover in Suspension and Imaging Mass Cytometry
  authors:
  - name: Chevrier
  - name: Stéphane
  - name: Crowell
  - family-names: L
    given-names: Helena
  - name: Zanotelli
  - family-names: T
    given-names: Vito R
  - name: Engler
  - name: Stefanie
  - name: Robinson
  - family-names: D
    given-names: Mark
  - name: Bodenmiller
  - name: Bernd
  journal: Cell Systems
  volume: '6'
  issue: '5'
  year: '2018'
  doi: 10.1016/j.cels.2018.02.010
  start: '612'
  end: 620.e5
repository: https://bioc-release.r-universe.dev
repository-code: https://github.com/HelenaLC/CATALYST
commit: 093e4f5755cf208500087f809ed40212761f34cd
url: https://github.com/HelenaLC/CATALYST
date-released: '2026-04-28'
contact:
- family-names: Crowell
  given-names: Helena L.
  email: helena@crowell.eu
  orcid: https://orcid.org/0000-0002-4801-1767
references:
- type: article
  title: 'CyTOF workflow: differential discovery in high-throughput high-dimensional
    cytometry datasets'
  authors:
  - name: Nowicka
  - name: Malgorzata
  - name: Krieg
  - name: Carsten
  - name: Crowell
  - family-names: L
    given-names: Helena
  - name: Weber
  - family-names: M
    given-names: Lukas
  - name: Hartmann
  - family-names: J
    given-names: Felix
  - name: Guglietta
  - name: Silvia
  - name: Becher
  - name: Burkhard
  - name: Levesque
  - family-names: P
    given-names: Mitchell
  - name: Robinson
  - family-names: D
    given-names: Mark
  journal: F1000Research
  volume: '6'
  year: '2019'
  doi: 10.12688/f1000research.11622.3
  start: 748 [v4]
- type: article
  title: An R-based reproducible and user-friendly preprocessing pipeline for CyTOF
    data
  authors:
  - name: Crowell
  - family-names: L
    given-names: Helena
  - name: Chevrier
  - name: Stéphane
  - name: Jacobs
  - name: Andrea
  - name: Sivapatham
  - name: Sujana
  - family-names: Consortium
    given-names: Tumor Profiler
  - name: Bodenmiller
  - name: Bernd
  - name: Robinson
  - family-names: D
    given-names: Mark
  journal: F1000Research
  volume: '9'
  year: '2022'
  doi: 10.12688/f1000research.26073.2
  start: 1263 [v2]