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SubPatCNV is a tool for discovery/identification of copy number variable (CNV) regions larger than a set threshold. The algorithm uses approximate pattern matching for the identification of CNVs.


Genetic variation; Nucleic acids; Nucleic acid sites, features and motifs


  • Operation: Copy number estimation
  • Software interface: Command-line user interface
  • Language: MATLAB;C++
  • Operating system: Linux; Mac OS X
  • License: Not stated
  • Cost: Free
  • Version name: -
  • Credit: NSF grant # IIS1117153 and NSF grant # IIS0916439, University of Minnesota Rochester Biomedical Informatics and Computational Biology Program Traineeship Award, The Cancer Genome Atlas established by the NCI and NHGRI.
  • Contact: kuang _at_;njohnson _at_
  • Collection: -


Johnson N, Zhang H, Fang G, Kumar V, Kuang R "SubPatCNV: approximate subspace pattern mining for mapping copy-number variations." BMC Bioinformatics. 2015 Jan 16;16:16.
PMID: 25591662
PMCID: PMC4305219

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