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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 "cellNexus" in publications use:'
type: software
license: GPL-3.0-only
title: 'cellNexus: Queries the Human Cell Atlas'
version: 0.99.23
doi: 10.1101/2023.06.08.542671
abstract: 'Provides access to a copy of the Human Cell Atlas, but with harmonised
  metadata. This allows for uniform querying across numerous datasets within the Atlas
  using common fields such as cell type, tissue type, and patient ethnicity. Usage
  involves first querying the metadata table for cells of interest, and then downloading
  the corresponding cells into one of several supported formats, including SingleCellExperiment,
  Seurat, or pseudobulk SummarizedExperiment objects. Note: The Human Cell Atlas data
  accessed through this package is subject to its own licensing terms (typically Creative
  Commons Attribution or similar open data licenses as specified by the Human Cell
  Atlas Data Use Agreement), which differ from the package license (GPL-3). See the
  package documentation for details.'
authors:
- family-names: Mangiola
  given-names: Stefano
  email: mangiolastefano@gmail.com
  orcid: https://orcid.org/0000-0001-7474-836X
- family-names: Shen
  given-names: Mengyuan
  email: shen.m@wehi.edu.au
  orcid: https://orcid.org/0009-0008-0057-8239
- family-names: Milton
  given-names: Michael
  email: milton.m@wehi.edu.au
  orcid: https://orcid.org/0000-0002-8965-2595
- family-names: Andrews
  given-names: Jared
  email: jared.andrews07@gmail.com
- family-names: Henao
  given-names: Juan
  email: juan.henao@helmholtz-muenchen.de
- family-names: Yang
  given-names: Edward
  email: edwardyang125@gmail.com
preferred-citation:
  type: article
  title: A multi-organ map of the human immune system across age, sex and ethnicity
  authors:
  - family-names: Mangiola
    given-names: Stefano
    email: mangiolastefano@gmail.com
    orcid: https://orcid.org/0000-0001-7474-836X
  - family-names: Milton
    given-names: Michael
    email: milton.m@wehi.edu.au
    orcid: https://orcid.org/0000-0002-8965-2595
  - family-names: Ranathunga
    given-names: Nishika
  - family-names: Li-Wai-Suen
    given-names: Connie SN
  - family-names: Odainic
    given-names: Alexandru
  - family-names: Yang
    given-names: Edward
    email: edwardyang125@gmail.com
  - family-names: Hutchison
    given-names: William
  - family-names: Garnham
    given-names: Alexandra
  - family-names: Iskander
    given-names: Julie
  - family-names: Pal
    given-names: Bhupinder
  - family-names: Yadav
    given-names: Vijay Kumar
  - family-names: Rossello
    given-names: Fernando
  - family-names: Carey
    given-names: Vincent
  - family-names: Morgan
    given-names: Martin
  - family-names: Bedoui
    given-names: Sammy
  - family-names: Kallies
    given-names: Axel
  - family-names: Papenfuss
    given-names: Anthony T.
  year: '2024'
  journal: bioRxiv
  doi: 10.1101/2023.06.08.542671
repository: https://bioc.r-universe.dev
repository-code: https://github.com/MangiolaLaboratory/cellNexus
commit: d7f0137d1c71be379107844554c6370f3a1b6ffe
url: https://mangiolalaboratory.github.io/cellNexus/
date-released: '2026-05-26'
contact:
- family-names: Shen
  given-names: Mengyuan
  email: shen.m@wehi.edu.au
  orcid: https://orcid.org/0009-0008-0057-8239