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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 "miQC" in publications use:'
type: software
license: BSD-3-Clause
title: 'miQC: Flexible, probabilistic metrics for quality control of scRNA-seq data'
version: 1.20.0
doi: 10.1371/journal.pcbi.1009290
identifiers:
- type: doi
  value: 10.32614/CRAN.package.miQC
abstract: Single-cell RNA-sequencing (scRNA-seq) has made it possible to profile gene
  expression in tissues at high resolution. An important preprocessing step prior
  to performing downstream analyses is to identify and remove cells with poor or degraded
  sample quality using quality control (QC) metrics. Two widely used QC metrics to
  identify a ‘low-quality’ cell are (i) if the cell includes a high proportion of
  reads that map to mitochondrial DNA encoded genes (mtDNA) and (ii) if a small number
  of genes are detected. miQC is data-driven QC metric that jointly models both the
  proportion of reads mapping to mtDNA and the number of detected genes with mixture
  models in a probabilistic framework to predict the low-quality cells in a given
  dataset.
authors:
- family-names: Hippen
  given-names: Ariel
  email: ariel.hippen@gmail.com
- family-names: Hicks
  given-names: Stephanie
  email: shicks19@jhu.edu
preferred-citation:
  type: article
  title: 'miQC: An adaptive probabilistic framework for quality control of single-cell
    RNA-sequencing data'
  authors:
  - family-names: Hippen
    given-names: Ariel
    email: ariel.hippen@gmail.com
  - family-names: Falco
    given-names: Matias
  - family-names: Weber
    given-names: Lukas
  - family-names: Erkan
    given-names: Erdogan
  - family-names: Zhang
    given-names: Kaiyang
  - family-names: Doherty
    given-names: Jennifer
  - family-names: Vähärautio
    given-names: Anna
  - family-names: Greene
    given-names: Casey
  - family-names: Hicks
    given-names: Stephanie
    email: shicks19@jhu.edu
  year: '2021'
  journal: PLoS Comput Biol
  url: https://doi.org/10.1371/journal.pcbi.1009290
  doi: 10.1371/journal.pcbi.1009290
repository: https://bioc-release.r-universe.dev
repository-code: https://github.com/greenelab/miQC
commit: cec28aef59e90b34cdddcd8ec886c87ecfcd84f8
url: https://github.com/greenelab/miQC
date-released: '2026-04-28'
contact:
- family-names: Hippen
  given-names: Ariel
  email: ariel.hippen@gmail.com