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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 "GeneTonic" in publications use:'
type: software
license: MIT
title: 'GeneTonic: Enjoy Analyzing And Integrating The Results From Differential Expression
  Analysis And Functional Enrichment Analysis'
version: 2.9.0
doi: 10.1186/s12859-021-04461-5
abstract: This package provides functionality to combine the existing pieces of the
  transcriptome data and results, making it easier to generate insightful observations
  and hypothesis. Its usage is made easy with a Shiny application, combining the benefits
  of interactivity and reproducibility e.g. by capturing the features and gene sets
  of interest highlighted during the live session, and creating an HTML report as
  an artifact where text, code, and output coexist. Using the GeneTonicList as a standardized
  container for all the required components, it is possible to simplify the generation
  of multiple visualizations and summaries.
authors:
- family-names: Marini
  given-names: Federico
  email: marinif@uni-mainz.de
  orcid: https://orcid.org/0000-0003-3252-7758
- family-names: Ludt
  given-names: Annekathrin
  email: anneludt@uni-mainz.de
  orcid: https://orcid.org/0000-0002-2475-4945
preferred-citation:
  type: article
  title: 'GeneTonic: an R/Bioconductor package for streamlining the interpretation
    of RNA-seq data'
  authors:
  - family-names: Marini
    given-names: Federico
    email: marinif@uni-mainz.de
    orcid: https://orcid.org/0000-0003-3252-7758
  - family-names: Ludt
    given-names: Annekathrin
    email: anneludt@uni-mainz.de
    orcid: https://orcid.org/0000-0002-2475-4945
  - family-names: Linke
    given-names: Jan
  - family-names: Strauch
    given-names: Konstantin
  journal: BMC Bioinformatics
  volume: '22'
  year: '2021'
  doi: 10.1186/s12859-021-04461-5
  url: https://bioconductor.org/packages/GeneTonic/
  start: '610'
repository: https://bioc.r-universe.dev
repository-code: https://github.com/federicomarini/GeneTonic
url: https://github.com/federicomarini/GeneTonic
date-released: '2024-03-24'
contact:
- family-names: Marini
  given-names: Federico
  email: marinif@uni-mainz.de
  orcid: https://orcid.org/0000-0003-3252-7758
references:
- type: article
  title: Interactive and Reproducible Workflows for Exploring and Modeling RNA-seq
    Data with pcaExplorer, ideal, and GeneTonic
  authors:
  - family-names: Ludt
    given-names: Annekathrin
  - family-names: Ustjanzew
    given-names: Arsenij
  - family-names: Binder
    given-names: Harald
  - family-names: Strauch
    given-names: Konstantin
  - family-names: Marini
    given-names: Federico
  journal: Current Protocols
  volume: '2'
  issue: '4'
  year: '2022'
  month: '4'
  doi: 10.1002/cpz1.411
  start: e411