# --------------------------------------------
# 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 "ShortRead" in publications use:'
type: software
license: Artistic-2.0
title: 'ShortRead: FASTQ input and manipulation'
version: 1.70.0
doi: 10.1093/bioinformatics/btp450
identifiers:
- type: doi
  value: 10.32614/CRAN.package.ShortRead
- type: doi
  value: http://dx.doi.org10.1093/bioinformatics/btp450
- type: url
  value: https://support.bioconductor.org/tag/ShortRead
abstract: This package implements sampling, iteration, and input of FASTQ files. The
  package includes functions for filtering and trimming reads, and for generating
  a quality assessment report. Data are represented as DNAStringSet-derived objects,
  and easily manipulated for a diversity of purposes. The package also contains legacy
  support for early single-end, ungapped alignment formats.
authors:
- name: Bioconductor Package Maintainer
  email: maintainer@bioconductor.org
- family-names: Morgan
  given-names: Martin
preferred-citation:
  type: article
  title: 'ShortRead: a Bioconductor package for input, quality assessment and exploration
    of high-throughput sequence data'
  authors:
  - family-names: Morgan
    given-names: Martin
  - family-names: Anders
    given-names: Simon
  - family-names: Lawrence
    given-names: Michael
  - family-names: Aboyoun
    given-names: Patrick
  - family-names: Pag\`es
    given-names: Herv\'e
  - family-names: Gentleman
    given-names: Robert
  year: '2009'
  journal: Bioinformatics
  volume: '25'
  doi: 10.1093/bioinformatics/btp450
  url: http://dx.doi.org10.1093/bioinformatics/btp450
  start: 2607-2608
  identifiers:
  - type: doi
    value: http://dx.doi.org10.1093/bioinformatics/btp450
repository: https://bioc-release.r-universe.dev
repository-code: https://github.com/Bioconductor/ShortRead
commit: ee5a413ff7d5c2de6b8469a100d7042edd919f70
url: https://bioconductor.org/packages/ShortRead
date-released: '2026-04-28'
contact:
- name: Bioconductor Package Maintainer
  email: maintainer@bioconductor.org