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IPGWAS is a pipeline tool that combines genome-wide association study (GWAS) and quality control. Apart from quality control, IPGWAS includes functions for Manhattan and quantile-quantile plots, and format conversion for genetic analyses, genotype phasing, and imputation.


Genetics; Genomics; GWAS study


  • Operation: Sequence analysis
  • Software interface: Graphical user interface
  • Language: Perl
  • Operating system: Linux; Mac OS X; Microsoft Windows
  • License: GNU Lesser General Public License v2
  • Cost: Free
  • Version name: 3.4
  • Credit: -
  • Contact: nolanfyh _at_ | songy _at_
  • Collection: -


Fan YH, Song YQ "IPGWAS: an integrated pipeline for rational quality control and association analysis of genome-wide genetic studies." Biochem. Biophys. Res. Commun. 2012; 422(3):363-8
PMID: 22564732

Download and documentation

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