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cff-version: 1.2.0
message: 'To cite package "sincell" in publications use:'
type: software
license: GPL-2.0-or-later
title: 'sincell: R package for the statistical assessment of cell state hierarchies
  from single-cell RNA-seq data'
version: 1.37.0
abstract: Cell differentiation processes are achieved through a continuum of hierarchical
  intermediate cell-states that might be captured by single-cell RNA seq. Existing
  computational approaches for the assessment of cell-state hierarchies from single-cell
  data might be formalized under a general workflow composed of i) a metric to assess
  cell-to-cell similarities (combined or not with a dimensionality reduction step),
  and ii) a graph-building algorithm (optionally making use of a cells-clustering
  step). Sincell R package implements a methodological toolbox allowing flexible workflows
  under such framework. Furthermore, Sincell contributes new algorithms to provide
  cell-state hierarchies with statistical support while accounting for stochastic
  factors in single-cell RNA seq. Graphical representations and functional association
  tests are provided to interpret hierarchies.
authors:
- family-names: Julia
  given-names: Miguel
  email: migueljuliamolina@gmail.com
- family-names: Rausell
  given-names: Antonio
  email: antonio.rausell@institutimagine.org
- family-names: Telenti
  given-names: Amalio
  email: atelenti@jcvi.org
preferred-citation:
  type: article
  title: 'Sincell: R package for the statistical assessment of cell state hierarchies
    from single-cell RNA-seq data'
  authors:
  - family-names: Juliá
    given-names: Miguel
  - family-names: Telenti
    given-names: Amalio
    email: atelenti@jcvi.org
  - family-names: Rausell
    given-names: Antonio
    email: antonio.rausell@institutimagine.org
  year: '2014'
  journal: bioRxiv
  url: http://dx.doi.org/
repository: https://bioc.r-universe.dev
url: http://bioconductor.org/
date-released: '2015-05-28'
contact:
- family-names: Julia
  given-names: Miguel
  email: migueljuliamolina@gmail.com
- family-names: Rausell
  given-names: Antonio
  email: antonio.rausell@institutimagine.org