Genie Home Page¶
- Genie
Genie is a general-purpose tool to analyze association and transmission disequilibrium (TDT) between genetic markers and traits in studies of families and independent individuals. It implements 3 analysis options. PedGenie for performing genetic association analysis in studies of families of arbitury sizes and structure, and independent cases and controls. hapMC for performing analysis on haplotype data. It uses Monte Carlo procedure and Expectation-Maximization estimates of haplotypes to provide valid haplotype tests for various standard association statistics. hapConstructor for exploring multi-locus associations in candidate genes and regions. It automatically builds multi-locus SNP sets to test for association in a case-control framework.
3.0.0.1
PedGenie Descritpion and Functionality
hapMC Description and Information
hapConstructor Description and Information
Java runtime, Genie.jar, .rgen parameter file and pedigree file(s)optional files : allele or haplotype frequency file; quantitative data file and linkage parameter file
How to execute
java -jar Genie.jar analysis_option rgenfile[.rgen]
Output Report
Output Report written to[.rgen file name].report or [.rgen file name].summary file.
Detailed description of .rgen XML file
All PedGenie, hapMC, hapConstructor and QTDT example files
PedGenie / QTDT Interface Package
Download Genie and QTDT Interface packages
Reference information
Registration
Please send name and email address to Steven Backus
Last update : 28 Aug 2020Publications References Bugs FAQ Disclaimer Contact/Requests