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PExFInS (Post-GWAS Explorer for Functional Indels and SNPs) is a tool to analyze functional insertions and deletions (indels), and single-nucleotide polymorphism (SNPs) in genome-wide association study (GWAS) data. The PExFInS algorithm includes functions for Linkage disequilibrium (LD) analysis with genotyping data of SNPs and indels from the 1000 Genomes Project, Comparison of LD pattern of query variants, eQTL analysis, annotation using ANNOVAR.



  • Operation:
  • Software interface: Command-line user interface
  • Language: Perl, SAS, Java
  • Operating system: Microsoft Windows, Mac OS X, Linux
  • License: Apache License 2.0
  • Cost: Free
  • Version name: -
  • Maturity: Stable
  • Credit: The Health and Medical Research Fund (HMRF), Food and Health Bureau, HKSAR; Providence Foundation Limited in memory of the late Lui Kac Minh.
  • Contact: jiezhou _at_
  • Collection: -


Cheng Z, Chu H, Fan Y, Li C, Song YQ, Zhou J, Yuen KY "PExFInS: An Integrative Post-GWAS Explorer for Functional Indels and SNPs." Sci Rep. 2015 Nov 27;5:17302.
PMID: 26612672
PMCID: PMC4661514

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