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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 "TCGAbiolinks" in publications use:'
type: software
license: GPL-3.0-or-later
title: 'TCGAbiolinks: TCGAbiolinks: An R/Bioconductor package for integrative analysis
  with GDC data'
version: 2.33.0
doi: 10.1093/nar/gkv1507
abstract: 'The aim of TCGAbiolinks is : i) facilitate the GDC open-access data retrieval,
  ii) prepare the data using the appropriate pre-processing strategies, iii) provide
  the means to carry out different standard analyses and iv) to easily reproduce earlier
  research results. In more detail, the package provides multiple methods for analysis
  (e.g., differential expression analysis, identifying differentially methylated regions)
  and methods for visualization (e.g., survival plots, volcano plots, starburst plots)
  in order to easily develop complete analysis pipelines.'
authors:
- family-names: Colaprico
  given-names: Antonio
  email: tiagochst@gmail.com
- family-names: Silva
  given-names: Tiago Chedraoui
  email: axc1833@med.miami.edu
- family-names: Olsen
  given-names: Catharina
- family-names: Garofano
  given-names: Luciano
- family-names: Garolini
  given-names: Davide
- family-names: Cava
  given-names: Claudia
- family-names: Sabedot
  given-names: Thais
- family-names: Malta
  given-names: Tathiane
- family-names: Pagnotta
  given-names: Stefano M.
- family-names: Castiglioni
  given-names: Isabella
- family-names: Ceccarelli
  given-names: Michele
- family-names: Bontempi
  given-names: Gianluca
- family-names: Noushmehr
  given-names: Houtan
preferred-citation:
  type: article
  title: 'TCGAbiolinks: An R/Bioconductor package for integrative analysis of TCGA
    data'
  authors:
  - family-names: Colaprico
    given-names: Antonio
    email: tiagochst@gmail.com
  - family-names: Silva
    given-names: Tiago Chedraoui
    email: axc1833@med.miami.edu
  - family-names: Olsen
    given-names: Catharina
  - family-names: Garofano
    given-names: Luciano
  - family-names: Cava
    given-names: Claudia
  - family-names: Garolini
    given-names: Davide
  - family-names: Sabedot
    given-names: Thais
  - family-names: Malta
    given-names: Tathiane M.
  - family-names: Pagnotta
    given-names: Stefano M.
  - family-names: Castiglioni
    given-names: Isabella
  - family-names: Ceccarelli
    given-names: Michele
  - family-names: Bontempi
    given-names: Gianluca
  - family-names: Noushmehr
    given-names: Houtan
  journal: Nucleic Acids Research
  year: '2015'
  doi: 10.1093/nar/gkv1507
  url: http://doi.org/10.1093/nar/gkv1507
repository: https://bioc.r-universe.dev
repository-code: https://github.com/BioinformaticsFMRP/TCGAbiolinks
url: https://github.com/BioinformaticsFMRP/TCGAbiolinks
date-released: '2024-01-01'
contact:
- family-names: Colaprico
  given-names: Antonio
  email: tiagochst@gmail.com
- family-names: Silva
  given-names: Tiago Chedraoui
  email: axc1833@med.miami.edu
references:
- type: article
  title: 'TCGA Workflow: Analyze cancer genomics and epigenomics data using Bioconductor
    packages'
  authors:
  - name: Silva
  - family-names: C
    given-names: Tiago
  - name: Colaprico
  - name: Antonio
  - name: Olsen
  - name: Catharina
  - name: D'Angelo
  - name: Fulvio
  - name: Bontempi
  - name: Gianluca
  - name: Ceccarelli
  - name: Michele
  - name: Noushmehr
  - name: Houtan
  journal: F1000Research
  volume: '5'
  year: '2016'
  publisher:
    name: Faculty of 1000 Ltd
- type: article
  title: New functionalities in the TCGAbiolinks package for the study and integration
    of cancer data from GDC and GTEx
  authors:
  - name: Mounir
  - name: Mohamed
  - name: Lucchetta
  - name: Marta
  - name: Silva
  - family-names: C
    given-names: Tiago
  - name: Olsen
  - name: Catharina
  - name: Bontempi
  - name: Gianluca
  - name: Chen
  - name: Xi
  - name: Noushmehr
  - name: Houtan
  - name: Colaprico
  - name: Antonio
  - name: Papaleo
  - name: Elena
  journal: PLoS computational biology
  volume: '15'
  issue: '3'
  year: '2019'
  publisher:
    name: Public Library of Science
  start: e1006701