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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 "slalom" in publications use:'
type: software
license: GPL-2.0-only
title: 'slalom: Factorial Latent Variable Modeling of Single-Cell RNA-Seq Data'
version: 1.27.0
abstract: slalom is a scalable modelling framework for single-cell RNA-seq data that
  uses gene set annotations to dissect single-cell transcriptome heterogeneity, thereby
  allowing to identify biological drivers of cell-to-cell variability and model confounding
  factors. The method uses Bayesian factor analysis with a latent variable model to
  identify active pathways (selected by the user, e.g. KEGG pathways) that explain
  variation in a single-cell RNA-seq dataset. This an R/C++ implementation of the
  f-scLVM Python package. See the publication describing the method at https://doi.org/10.1186/s13059-017-1334-8.
authors:
- family-names: Buettner
  given-names: Florian
  email: buettner@ebi.ac.uk
- family-names: Pratanwanich
  given-names: Naruemon
  email: np394@ebi.ac.uk
- family-names: McCarthy
  given-names: Davis
  email: davis@ebi.ac.uk
- family-names: Marioni
  given-names: John
  email: marioni@ebi.ac.uk
- family-names: Stegle
  given-names: Oliver
  email: stegle@ebi.ac.uk
preferred-citation:
  type: article
  title: 'f-scLVM: scalable and versatile factor analysis for single-cell RNA-seqR'
  authors:
  - family-names: Buettner
    given-names: Florian
    email: buettner@ebi.ac.uk
  - family-names: Pratanwanich
    given-names: Naruemon
    email: np394@ebi.ac.uk
  - family-names: McCarthy
    given-names: Davis J
  - family-names: Marioni
    given-names: John
    email: marioni@ebi.ac.uk
  - family-names: Stegle
    given-names: Oliver
    email: stegle@ebi.ac.uk
  journal: Genome Biology
  year: '2017'
repository: https://bioc.r-universe.dev
date-released: '2021-11-21'
contact:
- family-names: McCarthy
  given-names: Davis
  email: davis@ebi.ac.uk