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SEG is a tool to detect copy number variation (CNV) in whole-genome cancer sequencing data. The SEG algorithm normalizes the data by computing the log-ratio of normal and tumor density and finds points of difference by a Dynamic Programming method.


Genetic; human genetics; genetic variation; Oncology


  • Operation: Variation detection
  • Software interface: Command-line user interface
  • Language: C
  • Operating system: Microsoft Windows, Mac OS X, Linux
  • License: Not stated
  • Cost: Free
  • Version name: -
  • Credit: American Cancer Society, Georgia Cancer Coalition, the AKC Canine Health Foundation.
  • Contact: Shaying Zhao szhao _at_
  • Collection: -


Zhang M, Liu D, Tang J, Feng Y, Wang T, Dobbin KK, Schliekelman P, Zhao S "SEG - A Software Program for Finding Somatic Copy Number Alterations in Whole Genome Sequencing Data of Cancer." Comput Struct Biotechnol J. 2018 Sep 7;16:335-341. eCollection 2018.
PMID: 30258547
PMCID: PMC6154469

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