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AbsCN-seq
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AbsCN-seq

AbsCN-seq is an R package for estimation of tumor purity, ploidy, and copy number variation (CNV) in next-generation sequencing data.



AbsCN-seq

AbsCN-seq is an R package for estimation of tumor purity, ploidy, and copy number variation (CNV) in next-generation sequencing data.

Topic

Genetics; Whole genome sequencing; DNA structural variation; Oncology

Details

  • Operation: Polymorphism detection; Sequence analysis; Structural variation detection; Copy number detection
  • Software interface: Command-line user interface
  • Language: R
  • Operating system: Microsoft Windows, Mac OS X, Linux
  • License: GNU GPL v 2
    • Cost: Free
  • Version name: 1.0
  • Credit: The National Institutes of Health (NIH), Breast Cancer Research Foundation.
  • Contact: Karen Messer kmesser _at_ ucsd.edu
  • Collection: -

Publications

Bao L, Pu M, Messer K "AbsCN-seq: a statistical method to estimate tumor purity, ploidy and absolute copy numbers from next-generation sequencing data." Bioinformatics. 2014 Apr 15;30(8):1056-1063. Epub 2014 Jan 2. https://doi.org/10.1093/bioinformatics/btt759
PMID: 24389661
PMCID: PMC6280749


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