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CNVrd2 is a command-line tool for the detection of copy number variation (CNV). The algorithm uses a linear regression model and a Bayesian normal mixture model for estimating individual copy number counts.


Whole genome sequencing; DNA polymorphism


  • Operation: Copy number estimation
  • Software interface: Command-line user interface; Library
  • Language: R
  • Operating system: Linux; Mac OS X; Microsoft Windows
  • License: GNU GPL v2
  • Cost: -
  • Version name: 1.9.1
  • Maturity: Stable
  • Credit: The Virtual Institute of Statistical Genetics, New Zealand.
  • Contact: hoangtannguyenvn _at_
  • Collection: BioConductor


Nguyen HT, Merriman TR, Black MA "The CNVrd2 package: measurement of copy number at complex loci using high-throughput sequencing data." Front Genet. 2014 Aug 1;5:248.
PMID: 25136349
PMCID: PMC4117933

Huber W, Carey VJ, Gentleman R, Anders S, Carlson M, Carvalho BS, Bravo HC, Davis S, Gatto L, Girke T, Gottardo R, Hahne F, Hansen KD, Irizarry RA, Lawrence M, Love MI, MacDonald J1, Obenchain V, Oleś AK, Pagès H, Reyes A, Shannon P, Smyth GK, Tenenbaum D, Waldron L, Morgan M "Orchestrating high-throughput genomic analysis with Bioconductor." Nat Methods. 2015 Feb;12(2):115-21.
PMID: 25633503
PMCID: PMC4509590

Gentleman RC, Carey VJ, Bates DM, Bolstad B, Dettling M, Dudoit S, Ellis B, Gautier L, Ge Y, Gentry J, Hornik K, Hothorn T, Huber W, Iacus S, Irizarry R, Leisch F, Li C, Maechler M, Rossini AJ, Sawitzki G, Smith C, Smyth G, Tierney L, Yang JY, Zhang J. "Bioconductor: open software development for computational biology and bioinformatics." Genome Biol. 2004;5(10):R80. Epub 2004 Sep 15.
PMID: 15461798
PMCID: PMC545600

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