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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 "mitoClone2" in publications use:'
type: software
license: GPL-3.0-only
title: 'mitoClone2: Clonal Population Identification in Single-Cell RNA-Seq Data using
  Mitochondrial and Somatic Mutations'
version: 1.18.0
doi: 10.1093/nargab/lqae095
identifiers:
- type: doi
  value: 10.32614/CRAN.package.mitoClone2
abstract: This package primarily identifies variants in mitochondrial genomes from
  BAM alignment files. It filters these variants to remove RNA editing events then
  estimates their evolutionary relationship (i.e. their phylogenetic tree) and groups
  single cells into clones. It also visualizes the mutations and providing additional
  genomic context.
authors:
- family-names: Story
  given-names: Benjamin
  email: story.benjamin@gmail.com
- family-names: Velten
  given-names: Lars
- family-names: Mönke
  given-names: Gregor
preferred-citation:
  type: article
  title: 'Mitoclone2: an R package for elucidating clonal structure in single-cell
    RNA-sequencing data using mitochondrial variants'
  authors:
  - family-names: Story
    given-names: Benjamin
    email: story.benjamin@gmail.com
  - family-names: Velten
    given-names: Lars
  - family-names: Mönke
    given-names: Gregor
  - family-names: Annan
    given-names: Ahrmad
  - family-names: Steinmetz
    given-names: Lars
  journal: NAR Genomics and Bioinformatics
  volume: '6'
  issue: '3'
  year: '2024'
  doi: 10.1093/nargab/lqae095
  start: lqae095
repository: https://bioc-release.r-universe.dev
repository-code: https://github.com/benstory/mitoClone2
commit: 577a2e2b9a02dbaaad99bef816e8e12da5bf4151
url: https://github.com/benstory/mitoClone2
date-released: '2026-04-28'
contact:
- family-names: Story
  given-names: Benjamin
  email: story.benjamin@gmail.com