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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 "dandelionR" in publications use:'
type: software
license: MIT
title: 'dandelionR: Single-cell Immune Repertoire Trajectory Analysis in R'
version: 0.99.10
abstract: dandelionR is an R package for performing single-cell immune repertoire
  trajectory analysis, based on the original python implementation. It provides the
  necessary functions to interface with scRepertoire and a custom implementation of
  an absorbing Markov chain for pseudotime inference, inspired by the Palantir Python
  package.
authors:
- family-names: Yu
  given-names: Jiawei
  email: jiawei.yu@uq.edu.au
  orcid: https://orcid.org/0009-0005-9170-7881
- family-names: Borcherding
  given-names: Nicholas
  email: borcherding@wustl.edu
  orcid: https://orcid.org/0000-0003-1427-6342
- family-names: Tuong
  given-names: Kelvin
  email: z.tuong@uq.edu.au
  orcid: https://orcid.org/0000-0002-6735-6808
preferred-citation:
  type: article
  title: 'DandelionR: Single-cell immune repertoire trajectory analysis in R'
  authors:
  - family-names: Yu
    given-names: Jiawei
    email: jiawei.yu@uq.edu.au
    orcid: https://orcid.org/0009-0005-9170-7881
  - family-names: Borcherding
    given-names: Nicholas
    email: borcherding@wustl.edu
    orcid: https://orcid.org/0000-0003-1427-6342
  - family-names: Tuong
    given-names: Zewen Kelvin
  journal: TBC
  year: '2025'
repository: https://bioc.r-universe.dev
repository-code: https://www.github.com/tuonglab/dandelionR
commit: 4b4b57bcdf1292fb7151b149f19a035db84aae7e
url: https://www.github.com/tuonglab/dandelionR/
contact:
- family-names: Tuong
  given-names: Kelvin
  email: z.tuong@uq.edu.au
  orcid: https://orcid.org/0000-0002-6735-6808
references:
- type: article
  title: Dandelion uses the single-cell adaptive immune receptor repertoire to explore
    lymphocyte developmental origins
  authors:
  - family-names: Suo
    given-names: Chenqu
  - family-names: Polanski
    given-names: Krzysztof
  - family-names: Dann
    given-names: Emma
  - family-names: Lindeboom
    given-names: Rik G.H.
  - family-names: Vilarrasa-Blasi
    given-names: Roser
  - family-names: Vento-Tormo
    given-names: Roser
  - family-names: Haniffa
    given-names: Muzlifah
  - family-names: Meyer
    given-names: Kerstin B.
  - family-names: Dratva
    given-names: Lisa M.
  - family-names: Tuong
    given-names: Zewen Kelvin
  - family-names: Clatworthy
    given-names: Menna R.
  - family-names: Teichmann
    given-names: Sarah A.
  journal: Nature Biotechnology
  volume: '42'
  year: '2024'
  publisher:
    name: Nature Publishing Group
  doi: 10.1038/s41587-023-01734-7
  url: https://www.nature.com/articles/s41587-023-01734-7