# --------------------------------------------
# CITATION file created with {cffr} R package
# See also: https://docs.ropensci.org/cffr/
# --------------------------------------------
 
cff-version: 1.2.0
message: 'To cite package "dreamlet" in publications use:'
type: software
license: Artistic-2.0
title: 'dreamlet: Scalable differential expression analysis of single cell transcriptomics
  datasets with complex study designs'
version: 1.3.3
doi: 10.1101/2023.03.17.533005
identifiers:
- type: doi
  value: 10.32614/CRAN.package.dreamlet
abstract: Recent advances in single cell/nucleus transcriptomic technology has enabled
  collection of cohort-scale datasets to study cell type specific gene expression
  differences associated disease state, stimulus, and genetic regulation. The scale
  of these data, complex study designs, and low read count per cell mean that characterizing
  cell type specific molecular mechanisms requires a user-frieldly, purpose-build
  analytical framework. We have developed the dreamlet package that applies a pseudobulk
  approach and fits a regression model for each gene and cell cluster to test differential
  expression across individuals associated with a trait of interest. Use of precision-weighted
  linear mixed models enables accounting for repeated measures study designs, high
  dimensional batch effects, and varying sequencing depth or observed cells per biosample.
authors:
- family-names: Hoffman
  given-names: Gabriel
  email: gabriel.hoffman@mssm.edu
  orcid: https://orcid.org/0000-0002-0957-0224
preferred-citation:
  type: article
  title: Efficient differential expression analysis of large-scale single cell transcriptomics
    data using dreamlet
  authors:
  - family-names: Hoffman
    given-names: Gabriel E.
  - family-names: al.
    given-names: et
  year: '2023'
  journal: bioRxiv
  doi: 10.1101/2023.03.17.533005
repository: https://bioc.r-universe.dev
repository-code: https://github.com/DiseaseNeurogenomics/dreamlet
commit: 8a427bee3071e63aaa5cf1b867e2fc4db9d89a63
url: https://DiseaseNeurogenomics.github.io/dreamlet
date-released: '2024-07-19'
contact:
- family-names: Hoffman
  given-names: Gabriel
  email: gabriel.hoffman@mssm.edu
  orcid: https://orcid.org/0000-0002-0957-0224