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SaRa

SaRa

A tool to detect and rank copy number variation (CNV). A modified version, modSaRa and modSaRa2 are also available.

Topic

Genetics; Sequencing; DNA

Details

  • Operation: Copy number estimation
  • Software interface: Command-line user interface; Library
  • Language: R
  • Operating system: Microsoft Windows
  • License: GNU GPL v2+
  • Cost: Free
  • Version name: 1.1
  • Credit: University of Arizona Internal grant and National Institute on Drug Abuse grant R01–DA016570
  • Contact: heping.zhang _at_ yale.edu
  • Collection: SaRa

Publications

Xiao F, Niu Y, Hao N, Xu Y, Jin Z, Zhang H "modSaRa: a computationally efficient R package for CNV identification." Bioinformatics. 2017 Aug 1;33(15):2384-2385. https://doi.org/10.1093/bioinformatics/btx212
PMID: 28453611
PMCID: PMC5860124


Niu YS, Zhang H "THE SCREENING AND RANKING ALGORITHM TO DETECT DNA COPY NUMBER VARIATIONS." Ann Appl Stat. 2012 Sep;6(3):1306-1326. https://doi.org/10.1214/12-AOAS539SUPP
PMID: 24069112
PMCID: PMC3779928


Hao N, Niu YS, Zhang H "Multiple Change-Point Detection via a Screening and Ranking Algorithm." Stat Sin. 2013 Jul 1;23(4):1553-1572. https://doi.org/10.5705/ss.2012.018s
PMID: 24489450
PMCID: PMC3902887


Niu YS, Zhang H "THE SCREENING AND RANKING ALGORITHM TO DETECT DNA COPY NUMBER VARIATIONS." Ann Appl Stat. 2012 Sep;6(3):1306-1326. https://doi.org/10.1214/12-AOAS539SUPP
PMID: 24069112
PMCID: PMC3779928


Hao N, Niu YS, Zhang H "Multiple Change-Point Detection via a Screening and Ranking Algorithm." Stat Sin. 2013 Jul 1;23(4):1553-1572. https://doi.org/10.5705/ss.2012.018s
PMID: 24489450
PMCID: PMC3902887


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