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CNVcaller is a tool for the detection of copy number variation (CNV) in large populations. Requirements: SAMtools 1.3 (using htslib 1.3), scikit-learn v0.19.0.


DNA structural variation; Genetic variation; Population genetics


  • Operation: Genetic variation analysis; Copy number estimation
  • Software interface: Command-line user interface
  • Language: Python;Perl
  • Operating system: Linux; Microsoft Windows
  • License: GNU General Public License v3
  • Cost: Free
  • Version name: -
  • Credit: The National Natural Science Foundation of China, the National Thousand Youth Talents Plan.
  • Contact: yu.jiang _at_
  • Collection: -


Wang X, Zheng Z, Cai Y, Chen T, Li C, Fu W, Jiang Y "CNVcaller: highly efficient and widely applicable software for detecting copy number variations in large populations." Gigascience. 2017 Dec 1;6(12):1-12.
PMID: 29220491
PMCID: PMC5751039

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