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Ioncopy is a tool for calling copy number variation (CNV) in targeted next-generation sequencing (NGS) data. The Ioncopy algorithm uses multiple testing to control FWER/FDR and estimate the significance of the variation.


Genetics; genetic variation


  • Operation: Genetic variation analysis
  • Software interface: ommand-line user interface
  • Language: R
  • Operating system: Microsoft Windows, Mac OS X, Linux
  • License: GNU General Public License v3
  • Cost: Free
  • Version name: 2.1.1
  • Maturity: Stable
  • Credit: The German Cancer Consortium, the German Cancer Aid.
  • Contact: Jan Budczies jan.budczies _at_
  • Collection: -


Budczies J, Pfarr N, Romanovsky E, Endris V, Stenzinger A, Denkert C "Ioncopy: an R Shiny app to call copy number alterations in targeted NGS data." BMC Bioinformatics. 2018 Apr 24;19(1):157.
PMID: 29699497
PMCID: PMC5921540

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