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GAPIT (Genome Association and Prediction Integrated Tool) is a tool for genome-wide association study (GWAS) and for genome prediction or selection. The GAPIT algorithm uses The Mixed Linear Model (MLM).


GWAS study


  • Operation: Statistical modelling
  • Software interface: Command-line user interface
  • Language: R
  • Operating system: Linux; Mac OS X; Microsoft Windows
  • License: Not stated
  • Cost: Free
  • Version name: -
  • Maturity: Mature
  • Credit: National Science Foundation, United States Department of Agriculture - Agricultural Research Service.
  • Contact: Dr. Jiabo Wang wangjiaboyifeng _at_
  • Collection: -


Lipka AE, Tian F, Wang Q, Peiffer J, Li M, Bradbury PJ, Gore MA, Buckler ES, Zhang Z "GAPIT: Genome Association and Prediction Integrated Tool" Bioinformatics. 2012 Sep 15;28(18):2397-9
PMID: 22796960

Tang Y, Liu X, Wang J, Li M, Wang Q, Tian F, Su Z, Pan Y, Liu D, Lipka AE, Buckler ES, Zhang Z "GAPIT Version 2: An Enhanced Integrated Tool for Genomic Association and Prediction" Plant Genome. 2016 Jul;9(2)
PMID: 27898829

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