# --------------------------------------------
# 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 "icetea" in publications use:'
type: software
license: GPL-3.0-only
title: 'icetea: Integrating Cap Enrichment with Transcript Expression Analysis'
version: 1.30.0
identifiers:
- type: doi
  value: 10.32614/CRAN.package.icetea
abstract: icetea (Integrating Cap Enrichment with Transcript Expression Analysis)
  provides functions for end-to-end analysis of multiple 5'-profiling methods such
  as CAGE, RAMPAGE and MAPCap, beginning from raw reads to detection of transcription
  start sites using replicates. It also allows performing differential TSS detection
  between group of samples, therefore, integrating the mRNA cap enrichment information
  with transcript expression analysis.
authors:
- family-names: Bhardwaj
  given-names: Vivek
  email: v.bhardwaj@hubrecht.eu
preferred-citation:
  type: article
  title: MAPCap allows high-resolution detection and differential expression analysis
    of transcription start sites
  authors:
  - name: Bhardwaj
  - name: Vivek
  - name: Semplicio
  - name: Giuseppe
  - name: Erdogdu
  - family-names: Umut
    given-names: Niyazi
  - name: Manke
  - name: Thomas
  - name: Akhtar
  - name: Asifa
  journal: Nat. Commun.
  publisher:
    name: Nature Publishing Group
  volume: '10'
  issue: '1'
  month: '7'
  year: '2019'
  url: https://www.nature.com/articles/s41467-019-11115-x
  start: '3219'
repository: https://bioc-release.r-universe.dev
repository-code: https://github.com/vivekbhr/icetea
commit: 08457931516c2c306382509336d624586713c5e2
url: https://github.com/vivekbhr/icetea
date-released: '2026-04-28'
contact:
- family-names: Bhardwaj
  given-names: Vivek
  email: v.bhardwaj@hubrecht.eu