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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 "CAGEfightR" in publications use:'
type: software
license: GPL-3.0-only
title: 'CAGEfightR: Analysis of Cap Analysis of Gene Expression (CAGE) data using
  Bioconductor'
version: 1.32.0
doi: 10.1186/s12859-019-3029-5
identifiers:
- type: doi
  value: 10.32614/CRAN.package.CAGEfightR
abstract: 'CAGE is a widely used high throughput assay for measuring transcription
  start site (TSS) activity. CAGEfightR is an R/Bioconductor package for performing
  a wide range of common data analysis tasks for CAGE and 5''-end data in general.
  Core functionality includes: import of CAGE TSSs (CTSSs), tag (or unidirectional)
  clustering for TSS identification, bidirectional clustering for enhancer identification,
  annotation with transcript and gene models, correlation of TSS and enhancer expression,
  calculation of TSS shapes, quantification of CAGE expression as expression matrices
  and genome brower visualization.'
authors:
- family-names: Thodberg
  given-names: Malte
  email: maltethodberg@gmail.com
preferred-citation:
  type: article
  title: 'CAGEfightR : analysis of 5 ′ -end data using R / Bioconductor'
  authors:
  - family-names: Thodberg
    given-names: Malte
    email: maltethodberg@gmail.com
  - family-names: Thieffry
    given-names: Axel
  - family-names: Vitting-Seerup
    given-names: Kristoffer
  - family-names: Andersson
    given-names: Robin
  - family-names: Sandelin
    given-names: Albin
  year: '2019'
  journal: BMC Bioinformatics
  doi: 10.1186/s12859-019-3029-5
  volume: '20'
  issue: '1'
  start: '487'
repository: https://bioc-release.r-universe.dev
repository-code: https://github.com/MalteThodberg/CAGEfightR
commit: e3251473192b08980f7efaf0447c366849aa4926
url: https://github.com/MalteThodberg/CAGEfightR
date-released: '2026-04-28'
contact:
- family-names: Thodberg
  given-names: Malte
  email: maltethodberg@gmail.com