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WaveCNV is a software tool package to detect copy number variation (CNV). The WaveCNV algorithm uses translation-invariant discrete wavelet transforms to detect CNV breakpoints in next-generation sequencing (NGS) data. It also assigns alleles and determines the chromosomal ratio following duplication or loss.
Alternative names: WaveCNV-caller, WaveCNV-segmenter.


Genetics; DNA structural variation; Oncology


  • Operation: Polymorphism detection; Structural variation detection
  • Software interface: Command-line user interface
  • Language: Matlab;Perl
  • Operating system: Mac OS X, Linux
  • License: Not stated
  • Cost: Free
  • Version name: 0.001
  • Maturity: Stable
  • Credit: Ontario Institute for Cancer Research, Ontario Ministry of Research and innovation.
  • Contact: lakshmi.muthuswamy _at_
  • Collection: -


Holt C, Losic B, Pai D, Zhao Z, Trinh Q, Syam S, Arshadi N, Jang GH, Ali J, Beck T, McPherson J, Muthuswamy LB "WaveCNV: allele-specific copy number alterations in primary tumors and xenograft models from next-generation sequencing." Bioinformatics. 2014 Mar 15;30(6):768-74. Epub 2013 Nov 4.
PMID: 24192544
PMCID: PMC3957071

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